HDI Segmentation
[1]:
# HDI segmentation preparation
# import custom modules
from miaaim.seg.hdiseg.hdiseg import HDISegmentation
# import external modules
from pathlib import Path
import pandas as pd
import os
# check versions and environment executable
import sys
sys.version
sys.executable
[1]:
'/opt/conda/envs/miaaim-dev/bin/python'
[2]:
# set path to project folder
project_folder = Path("/opt/miaaim-20220912-TMA4")
# set path to data folder
data_folder = project_folder.joinpath("data")
# get image preprocessing channels to use as a list of indices
prep_channels = pd.read_csv(Path(data_folder).joinpath("imc-preprocessing-markers.csv"))
prep_channels = [int(prep_channels.Page.values[i]) for i in range(len(prep_channels.Page.values))]
# get list of all images in the data folder (all used for training)
core_folders =[data_folder.joinpath(c) for c in os.listdir(data_folder) if data_folder.joinpath(c).is_dir()]
[3]:
# check to make sure we have the core folders for only prostate samples
core_folders = [c for c in core_folders if "PROSTATE" in c.name]
core_folders
[3]:
[PosixPath('/opt/miaaim-20220912-TMA4/data/ROI010_PROSTATE_TMA001'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI011_PROSTATE_TMA002'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI012_PROSTATE_TMA003'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI056_PROSTATE_TMA054'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI059_PROSTATE_TMA057'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067'),
PosixPath('/opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070')]
[4]:
# iterate over cores in the image list and prepare training crops
for c in core_folders:
# get the stem of image (folder name)
name = "preprocessing/imc/" + f"{c.stem}"+ "_core.ome.tiff"
# set root folder
root_folder = data_folder.joinpath(c.stem)
# create segmenter
segmenter = HDISegmentation(probabilities_dir="probabilities/imc/ilastik",
probabilities_image=None,
image_mask=None,
nuclear_index = 0,
membrane_index = 1,
background_index = 2,
root_folder=root_folder,
module_name='hdiseg',
name=None,
qc=True)
# compute nuclear segmentation
segmenter.NuclearSegmentation(
mask=False,
threshold_smoothing_filter_size=2,
force_separation_smoothing=False,
separation_smoothing_filter_size=2,
use_cellprofiler_smoothing=False,
parallel=False,
threshold_correction=1.3,
size_range_min=6,
size_range_max=13,
exlcude_outside_size_range=False,
exclude_border_labels=True,
unclump_method="Intensity",
watershed_method="Intensity",
automatic_suppression=True,
advanced=False,
basic=True
)
# compute membrane based segmentation
segmenter.MembraneSegmentation(
mask=False,
distance_to_dilate=3,
threshold_correction=1.4,
fill_holes=True,
method="Propagation", # "Distance - N", "Distance - B"
discard_edge=True,
regularization_factor=1.8
)
# export mask and qc information
segmenter.ExportSegmentationMask()
segmenter.ExportSegmentationMaskQC()
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI010_PROSTATE_TMA001
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI010_PROSTATE_TMA001/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI010_PROSTATE_TMA001/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI010_PROSTATE_TMA001/probabilities/imc/ilastik/ROI010_PROSTATE_TMA001_core_probabilities.tiff
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI010_PROSTATE_TMA001/segmentation/imc/hdiseg-ilastik/ROI010_PROSTATE_TMA001_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI011_PROSTATE_TMA002
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI011_PROSTATE_TMA002
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI011_PROSTATE_TMA002/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI011_PROSTATE_TMA002/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI011_PROSTATE_TMA002/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI011_PROSTATE_TMA002/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI011_PROSTATE_TMA002/probabilities/imc/ilastik/ROI011_PROSTATE_TMA002_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI011_PROSTATE_TMA002/probabilities/imc/ilastik/ROI011_PROSTATE_TMA002_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI011_PROSTATE_TMA002/segmentation/imc/hdiseg-ilastik/ROI011_PROSTATE_TMA002_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI012_PROSTATE_TMA003
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI012_PROSTATE_TMA003
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI012_PROSTATE_TMA003
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI012_PROSTATE_TMA003/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI012_PROSTATE_TMA003/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI012_PROSTATE_TMA003/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI012_PROSTATE_TMA003/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI012_PROSTATE_TMA003/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI012_PROSTATE_TMA003/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI012_PROSTATE_TMA003/probabilities/imc/ilastik/ROI012_PROSTATE_TMA003_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI012_PROSTATE_TMA003/probabilities/imc/ilastik/ROI012_PROSTATE_TMA003_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI012_PROSTATE_TMA003/probabilities/imc/ilastik/ROI012_PROSTATE_TMA003_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004/probabilities/imc/ilastik/ROI013_PROSTATE_TMA004_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004/probabilities/imc/ilastik/ROI013_PROSTATE_TMA004_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004/probabilities/imc/ilastik/ROI013_PROSTATE_TMA004_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004/probabilities/imc/ilastik/ROI013_PROSTATE_TMA004_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI013_PROSTATE_TMA004/segmentation/imc/hdiseg-ilastik/ROI013_PROSTATE_TMA004_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/probabilities/imc/ilastik/ROI014_PROSTATE_TMA005_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/probabilities/imc/ilastik/ROI014_PROSTATE_TMA005_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/probabilities/imc/ilastik/ROI014_PROSTATE_TMA005_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/probabilities/imc/ilastik/ROI014_PROSTATE_TMA005_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI014_PROSTATE_TMA005/probabilities/imc/ilastik/ROI014_PROSTATE_TMA005_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/probabilities/imc/ilastik/ROI015_PROSTATE_TMA006_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/probabilities/imc/ilastik/ROI015_PROSTATE_TMA006_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/probabilities/imc/ilastik/ROI015_PROSTATE_TMA006_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/probabilities/imc/ilastik/ROI015_PROSTATE_TMA006_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/probabilities/imc/ilastik/ROI015_PROSTATE_TMA006_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/probabilities/imc/ilastik/ROI015_PROSTATE_TMA006_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI015_PROSTATE_TMA006/segmentation/imc/hdiseg-ilastik/ROI015_PROSTATE_TMA006_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/probabilities/imc/ilastik/ROI016_PROSTATE_TMA007_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/probabilities/imc/ilastik/ROI016_PROSTATE_TMA007_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/probabilities/imc/ilastik/ROI016_PROSTATE_TMA007_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/probabilities/imc/ilastik/ROI016_PROSTATE_TMA007_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/probabilities/imc/ilastik/ROI016_PROSTATE_TMA007_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/probabilities/imc/ilastik/ROI016_PROSTATE_TMA007_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI016_PROSTATE_TMA007/probabilities/imc/ilastik/ROI016_PROSTATE_TMA007_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/probabilities/imc/ilastik/ROI017_PROSTATE_TMA008_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/probabilities/imc/ilastik/ROI017_PROSTATE_TMA008_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/probabilities/imc/ilastik/ROI017_PROSTATE_TMA008_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/probabilities/imc/ilastik/ROI017_PROSTATE_TMA008_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/probabilities/imc/ilastik/ROI017_PROSTATE_TMA008_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/probabilities/imc/ilastik/ROI017_PROSTATE_TMA008_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/probabilities/imc/ilastik/ROI017_PROSTATE_TMA008_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI017_PROSTATE_TMA008/probabilities/imc/ilastik/ROI017_PROSTATE_TMA008_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/probabilities/imc/ilastik/ROI018_PROSTATE_TMA009_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/probabilities/imc/ilastik/ROI018_PROSTATE_TMA009_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/probabilities/imc/ilastik/ROI018_PROSTATE_TMA009_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/probabilities/imc/ilastik/ROI018_PROSTATE_TMA009_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/probabilities/imc/ilastik/ROI018_PROSTATE_TMA009_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/probabilities/imc/ilastik/ROI018_PROSTATE_TMA009_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/probabilities/imc/ilastik/ROI018_PROSTATE_TMA009_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/probabilities/imc/ilastik/ROI018_PROSTATE_TMA009_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/probabilities/imc/ilastik/ROI018_PROSTATE_TMA009_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI018_PROSTATE_TMA009/segmentation/imc/hdiseg-ilastik/ROI018_PROSTATE_TMA009_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/probabilities/imc/ilastik/ROI019_PROSTATE_Benign_TMA008N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/probabilities/imc/ilastik/ROI019_PROSTATE_Benign_TMA008N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/probabilities/imc/ilastik/ROI019_PROSTATE_Benign_TMA008N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/probabilities/imc/ilastik/ROI019_PROSTATE_Benign_TMA008N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/probabilities/imc/ilastik/ROI019_PROSTATE_Benign_TMA008N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/probabilities/imc/ilastik/ROI019_PROSTATE_Benign_TMA008N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/probabilities/imc/ilastik/ROI019_PROSTATE_Benign_TMA008N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/probabilities/imc/ilastik/ROI019_PROSTATE_Benign_TMA008N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/probabilities/imc/ilastik/ROI019_PROSTATE_Benign_TMA008N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/probabilities/imc/ilastik/ROI019_PROSTATE_Benign_TMA008N_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI019_PROSTATE_Benign_TMA008N/segmentation/imc/hdiseg-ilastik/ROI019_PROSTATE_Benign_TMA008N_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/probabilities/imc/ilastik/ROI020_PROSTATE_Benign_TMA011N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/probabilities/imc/ilastik/ROI020_PROSTATE_Benign_TMA011N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/probabilities/imc/ilastik/ROI020_PROSTATE_Benign_TMA011N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/probabilities/imc/ilastik/ROI020_PROSTATE_Benign_TMA011N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/probabilities/imc/ilastik/ROI020_PROSTATE_Benign_TMA011N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/probabilities/imc/ilastik/ROI020_PROSTATE_Benign_TMA011N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/probabilities/imc/ilastik/ROI020_PROSTATE_Benign_TMA011N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/probabilities/imc/ilastik/ROI020_PROSTATE_Benign_TMA011N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/probabilities/imc/ilastik/ROI020_PROSTATE_Benign_TMA011N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/probabilities/imc/ilastik/ROI020_PROSTATE_Benign_TMA011N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI020_PROSTATE_Benign_TMA011N/probabilities/imc/ilastik/ROI020_PROSTATE_Benign_TMA011N_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/probabilities/imc/ilastik/ROI021_PROSTATE_TMA012_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/probabilities/imc/ilastik/ROI021_PROSTATE_TMA012_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/probabilities/imc/ilastik/ROI021_PROSTATE_TMA012_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/probabilities/imc/ilastik/ROI021_PROSTATE_TMA012_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/probabilities/imc/ilastik/ROI021_PROSTATE_TMA012_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/probabilities/imc/ilastik/ROI021_PROSTATE_TMA012_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/probabilities/imc/ilastik/ROI021_PROSTATE_TMA012_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/probabilities/imc/ilastik/ROI021_PROSTATE_TMA012_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/probabilities/imc/ilastik/ROI021_PROSTATE_TMA012_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/probabilities/imc/ilastik/ROI021_PROSTATE_TMA012_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/probabilities/imc/ilastik/ROI021_PROSTATE_TMA012_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/probabilities/imc/ilastik/ROI021_PROSTATE_TMA012_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI021_PROSTATE_TMA012/segmentation/imc/hdiseg-ilastik/ROI021_PROSTATE_TMA012_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/probabilities/imc/ilastik/ROI022_PROSTATE_TMA013_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/probabilities/imc/ilastik/ROI022_PROSTATE_TMA013_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/probabilities/imc/ilastik/ROI022_PROSTATE_TMA013_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/probabilities/imc/ilastik/ROI022_PROSTATE_TMA013_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/probabilities/imc/ilastik/ROI022_PROSTATE_TMA013_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/probabilities/imc/ilastik/ROI022_PROSTATE_TMA013_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/probabilities/imc/ilastik/ROI022_PROSTATE_TMA013_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/probabilities/imc/ilastik/ROI022_PROSTATE_TMA013_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/probabilities/imc/ilastik/ROI022_PROSTATE_TMA013_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/probabilities/imc/ilastik/ROI022_PROSTATE_TMA013_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/probabilities/imc/ilastik/ROI022_PROSTATE_TMA013_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/probabilities/imc/ilastik/ROI022_PROSTATE_TMA013_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI022_PROSTATE_TMA013/probabilities/imc/ilastik/ROI022_PROSTATE_TMA013_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/probabilities/imc/ilastik/ROI023_PROSTATE_TMA015_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI023_PROSTATE_TMA015/segmentation/imc/hdiseg-ilastik/ROI023_PROSTATE_TMA015_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI024_PROSTATE_TMA016/probabilities/imc/ilastik/ROI024_PROSTATE_TMA016_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/probabilities/imc/ilastik/ROI025_PROSTATE_TMA017_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI025_PROSTATE_TMA017/segmentation/imc/hdiseg-ilastik/ROI025_PROSTATE_TMA017_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/probabilities/imc/ilastik/ROI026_PROSTATE_TMA018_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI026_PROSTATE_TMA018/segmentation/imc/hdiseg-ilastik/ROI026_PROSTATE_TMA018_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI027_PROSTATE_TMA019/probabilities/imc/ilastik/ROI027_PROSTATE_TMA019_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI028_PROSTATE_TMA020/probabilities/imc/ilastik/ROI028_PROSTATE_TMA020_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI029_PROSTATE_TMA022/probabilities/imc/ilastik/ROI029_PROSTATE_TMA022_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
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PROCESSING DATA
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PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
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Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI030_PROSTATE_TMA023/probabilities/imc/ilastik/ROI030_PROSTATE_TMA023_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
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Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/probabilities/imc/ilastik/ROI031_PROSTATE_TMA024_core_probabilities.tiff
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
PROCESSING DATA
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PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI031_PROSTATE_TMA024/segmentation/imc/hdiseg-ilastik/ROI031_PROSTATE_TMA024_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
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Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI032_PROSTATE_TMA025/probabilities/imc/ilastik/ROI032_PROSTATE_TMA025_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
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Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI033_PROSTATE_TMA026/probabilities/imc/ilastik/ROI033_PROSTATE_TMA026_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
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Parsing probabilities image...
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Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/probabilities/imc/ilastik/ROI034_PROSTATE_TMA027_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI034_PROSTATE_TMA027/segmentation/imc/hdiseg-ilastik/ROI034_PROSTATE_TMA027_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
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Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
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Parsing probabilities image...
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Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/probabilities/imc/ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI035_PROSTATE_Benign_TMA027N/segmentation/imc/hdiseg-ilastik/ROI035_PROSTATE_Benign_TMA027N_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
Parsing probabilities image...
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Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
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Parsing probabilities image...
Parsing probabilities image...
Parsing probabilities image...
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Parsing probabilities image...
Parsing probabilities image...
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Parsing probabilities image...
Parsing probabilities image...
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/probabilities/imc/ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI036_PROSTATE_Benign_TMA028N/segmentation/imc/hdiseg-ilastik/ROI036_PROSTATE_Benign_TMA028N_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI037_PROSTATE_TMA028/probabilities/imc/ilastik/ROI037_PROSTATE_TMA028_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
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Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/probabilities/imc/ilastik/ROI038_PROSTATE_TMA030_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI038_PROSTATE_TMA030/segmentation/imc/hdiseg-ilastik/ROI038_PROSTATE_TMA030_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/probabilities/imc/ilastik/ROI039_PROSTATE_TMA031_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI039_PROSTATE_TMA031/segmentation/imc/hdiseg-ilastik/ROI039_PROSTATE_TMA031_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
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Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/probabilities/imc/ilastik/ROI040_PROSTATE_TMA032_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI040_PROSTATE_TMA032/segmentation/imc/hdiseg-ilastik/ROI040_PROSTATE_TMA032_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/probabilities/imc/ilastik/ROI041_PROSTATE_TMA033_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI041_PROSTATE_TMA033/segmentation/imc/hdiseg-ilastik/ROI041_PROSTATE_TMA033_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/probabilities/imc/ilastik/ROI042_PROSTATE_TMA034_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI042_PROSTATE_TMA034/segmentation/imc/hdiseg-ilastik/ROI042_PROSTATE_TMA034_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/docs/qc/segmentation/imc/hdiseg-ilastik
Parsing probabilities image...
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Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/probabilities/imc/ilastik/ROI043_PROSTATE_TMA035_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI043_PROSTATE_TMA035/segmentation/imc/hdiseg-ilastik/ROI043_PROSTATE_TMA035_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/probabilities/imc/ilastik/ROI044_PROSTATE_TMA036_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI044_PROSTATE_TMA036/segmentation/imc/hdiseg-ilastik/ROI044_PROSTATE_TMA036_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
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METHOD: hdiseg
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METHOD: hdiseg
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METHOD: hdiseg
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METHOD: hdiseg
METHOD: hdiseg
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/probabilities/imc/ilastik/ROI045_PROSTATE_TMA038_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/probabilities/imc/ilastik/ROI045_PROSTATE_TMA038_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI045_PROSTATE_TMA038/probabilities/imc/ilastik/ROI045_PROSTATE_TMA038_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/probabilities/imc/ilastik/ROI046_PROSTATE_TMA039_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI046_PROSTATE_TMA039/segmentation/imc/hdiseg-ilastik/ROI046_PROSTATE_TMA039_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
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MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/probabilities/imc/ilastik/ROI047_PROSTATE_TMA041_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI047_PROSTATE_TMA041/segmentation/imc/hdiseg-ilastik/ROI047_PROSTATE_TMA041_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI048_PROSTATE_TMA042/docs/qc/segmentation/imc/hdiseg-ilastik
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI049_PROSTATE_TMA044/docs/qc/segmentation/imc/hdiseg-ilastik
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
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MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
METHOD: hdiseg
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI050_PROSTATE_TMA045/docs/qc/segmentation/imc/hdiseg-ilastik
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/probabilities/imc/ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI051_PROSTATE_Benign_TMA043N/segmentation/imc/hdiseg-ilastik/ROI051_PROSTATE_Benign_TMA043N_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
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MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/docs/qc/segmentation/imc/hdiseg-ilastik
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI052_PROSTATE_Benign_TMA046N/segmentation/imc/hdiseg-ilastik/ROI052_PROSTATE_Benign_TMA046N_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
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MIAAIM SEGMENTATION
MIAAIM SEGMENTATION
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/probabilities/imc/ilastik/ROI053_PROSTATE_TMA046_core_probabilities.tiff
PROCESSING DATA
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI053_PROSTATE_TMA046/segmentation/imc/hdiseg-ilastik/ROI053_PROSTATE_TMA046_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
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MIAAIM VERSION 0.0.2
MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI054_PROSTATE_TMA048/docs/qc/segmentation/imc/hdiseg-ilastik
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
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METHOD: hdiseg
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/probabilities/imc/ilastik/ROI055_PROSTATE_TMA049_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/probabilities/imc/ilastik/ROI055_PROSTATE_TMA049_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI055_PROSTATE_TMA049/segmentation/imc/hdiseg-ilastik/ROI055_PROSTATE_TMA049_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
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Reading /opt/miaaim-20220912-TMA4/data/ROI056_PROSTATE_TMA054/probabilities/imc/ilastik/ROI056_PROSTATE_TMA054_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI056_PROSTATE_TMA054/probabilities/imc/ilastik/ROI056_PROSTATE_TMA054_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI056_PROSTATE_TMA054/segmentation/imc/hdiseg-ilastik/ROI056_PROSTATE_TMA054_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/probabilities/imc/ilastik/ROI057_PROSTATE_TMA055_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI057_PROSTATE_TMA055/segmentation/imc/hdiseg-ilastik/ROI057_PROSTATE_TMA055_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
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MIAAIM VERSION 0.0.2
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI058_PROSTATE_TMA056/docs/qc/segmentation/imc/hdiseg-ilastik
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI059_PROSTATE_TMA057/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI059_PROSTATE_TMA057/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI059_PROSTATE_TMA057/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI059_PROSTATE_TMA057/probabilities/imc/ilastik/ROI059_PROSTATE_TMA057_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
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MIAAIM VERSION 0.0.2
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METHOD: hdiseg
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METHOD: hdiseg
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/probabilities/imc/ilastik/ROI060_PROSTATE_TMA059_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/probabilities/imc/ilastik/ROI060_PROSTATE_TMA059_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/probabilities/imc/ilastik/ROI060_PROSTATE_TMA059_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/probabilities/imc/ilastik/ROI060_PROSTATE_TMA059_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/probabilities/imc/ilastik/ROI060_PROSTATE_TMA059_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/probabilities/imc/ilastik/ROI060_PROSTATE_TMA059_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/probabilities/imc/ilastik/ROI060_PROSTATE_TMA059_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI060_PROSTATE_TMA059/segmentation/imc/hdiseg-ilastik/ROI060_PROSTATE_TMA059_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
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MIAAIM VERSION 0.0.2
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MIAAIM VERSION 0.0.2
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/probabilities/imc/ilastik/ROI061_PROSTATE_TMA060_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI061_PROSTATE_TMA060/segmentation/imc/hdiseg-ilastik/ROI061_PROSTATE_TMA060_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
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METHOD: hdiseg
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/probabilities/imc/ilastik/ROI062_PROSTATE_TMA061_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI062_PROSTATE_TMA061/probabilities/imc/ilastik/ROI062_PROSTATE_TMA061_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/docs/qc/segmentation/imc/hdiseg-ilastik
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
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ExportSegmentationMaskQC: exporting cell segmentation QC mask
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ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
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ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
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/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI063_PROSTATE_TMA062/segmentation/imc/hdiseg-ilastik/ROI063_PROSTATE_TMA062_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N/docs/qc/segmentation/imc/hdiseg-ilastik
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI064_PROSTATE_Benign_TMA063N/segmentation/imc/hdiseg-ilastik/ROI064_PROSTATE_Benign_TMA063N_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/probabilities/imc/ilastik/ROI065_PROSTATE_Benign_TMA064N_core_probabilities.tiff
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PROCESSING DATA
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI065_PROSTATE_Benign_TMA064N/segmentation/imc/hdiseg-ilastik/ROI065_PROSTATE_Benign_TMA064N_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/provenance
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/probabilities/imc/ilastik/ROI066_PROSTATE_TMA064_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/probabilities/imc/ilastik/ROI066_PROSTATE_TMA064_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/probabilities/imc/ilastik/ROI066_PROSTATE_TMA064_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI066_PROSTATE_TMA064/segmentation/imc/hdiseg-ilastik/ROI066_PROSTATE_TMA064_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/provenance
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/probabilities/imc/ilastik/ROI067_PROSTATE_TMA065_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/probabilities/imc/ilastik/ROI067_PROSTATE_TMA065_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/probabilities/imc/ilastik/ROI067_PROSTATE_TMA065_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/probabilities/imc/ilastik/ROI067_PROSTATE_TMA065_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/probabilities/imc/ilastik/ROI067_PROSTATE_TMA065_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/probabilities/imc/ilastik/ROI067_PROSTATE_TMA065_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/probabilities/imc/ilastik/ROI067_PROSTATE_TMA065_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI067_PROSTATE_TMA065/segmentation/imc/hdiseg-ilastik/ROI067_PROSTATE_TMA065_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
MIAAIM SEGMENTATION
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MIAAIM VERSION 0.0.2
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/provenance
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI068_PROSTATE_TMA066/docs/qc/segmentation/imc/hdiseg-ilastik
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
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ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
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ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
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ExportSegmentationMask: exporting cell segmentation mask
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ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
MIAAIM SEGMENTATION
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
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ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
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PROVENANCE FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/provenance
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/probabilities/imc/ilastik/ROI069_PROSTATE_TMA067_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/probabilities/imc/ilastik/ROI069_PROSTATE_TMA067_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI069_PROSTATE_TMA067/segmentation/imc/hdiseg-ilastik/ROI069_PROSTATE_TMA067_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))
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MIAAIM VERSION 0.0.2
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
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METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
METHOD: hdiseg
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
ROOT FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
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QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
QC FOLDER: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/docs/qc/segmentation/imc/hdiseg-ilastik
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Reading /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/probabilities/imc/ilastik/ROI070_PROSTATE_TMA070_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/probabilities/imc/ilastik/ROI070_PROSTATE_TMA070_core_probabilities.tiff
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Reading /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/probabilities/imc/ilastik/ROI070_PROSTATE_TMA070_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/probabilities/imc/ilastik/ROI070_PROSTATE_TMA070_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/probabilities/imc/ilastik/ROI070_PROSTATE_TMA070_core_probabilities.tiff
Reading /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/probabilities/imc/ilastik/ROI070_PROSTATE_TMA070_core_probabilities.tiff
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NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
NuclearSegmentation: performing nuclei-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
MembraneSegmentation: performing membrane-based segmentation
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMask: exporting cell segmentation mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
ExportSegmentationMaskQC: exporting cell segmentation QC mask
/opt/conda/envs/miaaim-dev/lib/python3.10/site-packages/miaaim/seg/hdiseg/hdiseg.py:1671: UserWarning: /opt/miaaim-20220912-TMA4/data/ROI070_PROSTATE_TMA070/segmentation/imc/hdiseg-ilastik/ROI070_PROSTATE_TMA070_core_probabilities_mask.tiff is a low contrast image
skimage.io.imsave(outfile, self.whole_cell_segmented.astype(np.uint16))