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CarragherLab
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cptools2
Running cellprofiler on eddie3 / SGE clusters
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fixes for new IX filepaths
#35
Swarchal
closed
3 years ago
0
Specify yaml loader
#34
Swarchal
closed
4 years ago
0
Latest pandas version requires python >= 3.5
#33
Swarchal
closed
4 years ago
1
Stop using spaces in field names in the config yaml
#32
Swarchal
opened
5 years ago
0
option in config file to set h_rt and h_vmem in eddie analysis script
#31
Swarchal
opened
5 years ago
0
option to remove plate by unique plate number rather than barcode name
#30
Swarchal
opened
6 years ago
0
use hash of config yaml as job suffix rather than random digits
#29
Swarchal
opened
6 years ago
1
create persistant log of jobs
#28
Swarchal
opened
6 years ago
0
use entry points rather than creating an alias
#27
Swarchal
closed
6 years ago
0
create a log file
#26
Swarchal
opened
6 years ago
0
check image directories for images of 0 bytes
#25
Swarchal
opened
6 years ago
0
AttributeError: 'module' object has no attribute 'shape' if chunk not in yaml file
#24
Swarchal
opened
6 years ago
1
loaddata.check_dataframe_size errors on final dataframe
#23
Swarchal
closed
6 years ago
0
KeyError if LoadDataError is raised
#22
Swarchal
closed
6 years ago
0
unbound local variable if spelling error in config
#21
Swarchal
opened
6 years ago
0
permission errors
#20
Swarchal
closed
6 years ago
1
log files should go with output directories by default
#19
Swarchal
closed
6 years ago
0
Check commands files are not empty
#18
Swarchal
closed
6 years ago
0
filelist.files_from_plate is being passed badly formed files
#17
Swarchal
closed
6 years ago
0
rsync fails if experiment name contains a space
#16
Swarchal
closed
6 years ago
2
ignore certain channels
#15
Swarchal
opened
6 years ago
0
re-run failed tasks (issue #11)
#14
Swarchal
closed
6 years ago
1
Don't store path to user's cellprofiler environment in the source code
#13
Swarchal
closed
6 years ago
0
have some sort of logging
#12
Swarchal
opened
6 years ago
0
Make script at the end to detect failed jobs
#11
Swarchal
opened
6 years ago
1
Check the cellprofiler pipeline exists, error if not
#10
Swarchal
closed
6 years ago
0
Auto-generate sge submission scripts
#9
Swarchal
closed
6 years ago
1
Check this works with new Cellprofiler release
#8
Swarchal
closed
6 years ago
0
Fails silently if experiment directory is not found
#7
Swarchal
closed
7 years ago
0
destaging is deleting data from currently running jobs
#6
Swarchal
closed
6 years ago
1
cant add a few plates from a single experiment
#5
Swarchal
closed
7 years ago
0
Jobs are failing due to missing data
#4
Swarchal
closed
7 years ago
2
run plates in lexicographic order
#3
Swarchal
closed
7 years ago
1
fuzzy yaml names
#2
Swarchal
opened
7 years ago
0
Job.create_commands fails when job is not chunked
#1
Swarchal
opened
7 years ago
0