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pepkit
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looper
A job submitter for Portable Encapsulated Projects
http://looper.databio.org
BSD 2-Clause "Simplified" License
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CWL plugin requires input schema
#309
stolarczyk
closed
3 years ago
2
plugin parameters should differ
#308
nsheff
closed
3 years ago
3
remove `pipeline. sample_yaml_path` key?
#307
stolarczyk
closed
3 years ago
4
plugins defaults for file names
#306
stolarczyk
closed
3 years ago
6
sample yaml paths
#305
nsheff
closed
3 years ago
3
add geofetch tutorial
#304
nsheff
closed
1 year ago
0
strange flag error message
#303
nsheff
closed
3 years ago
8
namespaces output plugin
#302
xuebingjie1990
closed
3 years ago
6
Cwl files output plugin
#301
xuebingjie1990
closed
3 years ago
0
printing reference to command template
#300
nsheff
closed
3 years ago
0
new looper plugins for sample yaml production
#299
nsheff
closed
3 years ago
4
A new plugin for outputting all looper variable namespaces
#298
nsheff
closed
3 years ago
2
make presubmit keys plural
#297
nsheff
closed
3 years ago
0
Is the new "paths" section a misnomer?
#296
nsheff
closed
3 years ago
5
improve error on bad presubmit hook script
#295
nsheff
closed
3 years ago
2
Post-submission hooks for checks
#294
nsheff
closed
1 month ago
2
Paths section should not be required
#293
nsheff
closed
3 years ago
4
Add support for pre-submit hooks and CWL workflows
#292
nsheff
closed
3 years ago
14
deprecate "dynamic_variables_command_template" and "path" piface keys
#291
stolarczyk
closed
3 years ago
0
adding an output explanation page to summarizer results
#290
nsheff
closed
7 months ago
5
run: Return code when no samples are submitted
#289
afrendeiro
closed
1 year ago
8
Moving _get_sample_yaml_path to a sample
#288
nsheff
closed
3 years ago
5
Example pipeline interface does not validate
#287
afrendeiro
closed
3 years ago
3
Unclear error message with PEP without looper section
#286
afrendeiro
closed
3 years ago
1
A plugin system for pre-submission hooks to modify samples and change yaml representations
#285
nsheff
closed
3 years ago
45
Proposal: introduce structure to sample yaml output
#284
nsheff
closed
3 years ago
4
Introducing CWL compatibility
#283
nsheff
closed
3 years ago
10
Use bash for submission
#282
nsheff
opened
3 years ago
2
document multi-value sample attributes behavior in cmd templates
#281
stolarczyk
closed
3 years ago
0
More flexible command execution.
#280
nsheff
closed
12 months ago
1
Reduce verbosity on command template failure
#278
nsheff
closed
2 months ago
1
dynamic variables priority order is incorrect
#277
nsheff
closed
3 years ago
3
dynamic_variables_command_template needs a relative key
#276
nsheff
closed
3 years ago
1
Is there an example dynamic_variables_command_template processor?
#275
nsheff
closed
4 years ago
2
1.2.1
#274
nsheff
closed
3 years ago
5
sample yaml path docs are confusing
#273
nsheff
closed
3 years ago
3
referring to sample yaml in command template
#272
nsheff
closed
1 month ago
9
.sub file environment variables do not have a value
#271
aaron-gu
closed
2 months ago
9
sample_modifiers and project_modifiers in looper config file
#270
nsheff
opened
4 years ago
14
results subdir
#269
nsheff
closed
4 years ago
13
relative pipeline interface paths should be relative to the PEP
#268
nsheff
closed
3 years ago
3
.looper.yaml should just use a relative path
#267
nsheff
closed
4 years ago
4
If the `.looper` file points to a non-existent file, it gives this error message.
#266
nsheff
closed
4 years ago
4
where should the divvy arg go?
#265
nsheff
closed
4 years ago
2
standardize logmuse
#264
nsheff
closed
1 year ago
1
toggle
#263
nsheff
closed
12 months ago
3
what does --file-checks do
#262
nsheff
closed
4 years ago
12
TypeError: expected str, bytes or os.PathLike object, not NoneType
#261
nsheff
closed
4 years ago
1
command extra functionality
#260
stolarczyk
closed
4 years ago
0
CLI simple args
#259
nsheff
closed
4 years ago
9
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