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BioLockJ-Dev-Team
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sheepdog_testing_suite
Test suite for BioLockJ development team.
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only include module load lines when using cluster env
#286
IvoryC
closed
3 years ago
2
excluding an non-existant column should be a warning, not an error
#285
IvoryC
opened
3 years ago
0
Validation option for comparing to an existing table
#284
IvoryC
opened
3 years ago
0
Create Outline Pipeline Plot
#283
IvoryC
opened
3 years ago
1
fields in excludeFields should not be added at later steps
#282
IvoryC
opened
3 years ago
0
Command line option to run on cluster
#281
IvoryC
opened
3 years ago
0
add command line option to put Log in debug mode
#280
IvoryC
closed
3 years ago
3
Docker patch
#279
IvoryC
closed
3 years ago
0
slow on copy inputs appears frozen
#278
IvoryC
opened
4 years ago
0
Slash r
#277
IvoryC
closed
4 years ago
0
Dev
#276
IvoryC
closed
4 years ago
0
Slash bash
#275
IvoryC
closed
4 years ago
0
Direct module does not change precheckComplete to biolockjStarted in module folder.
#274
IvoryC
opened
4 years ago
0
figure out why MAIN.sh has these error messages
#273
IvoryC
closed
4 years ago
1
MASTER and FINAL properties should save the current biolockj version
#272
IvoryC
closed
3 years ago
2
MASTER config does not show actual module run order, just the configured one.
#271
IvoryC
closed
3 years ago
1
Some values not checked during check dependencies
#270
IvoryC
closed
3 years ago
0
module not found error causes a freeze up in start-up with java launch process
#269
IvoryC
opened
4 years ago
0
api java args to match bash args
#268
IvoryC
closed
3 years ago
1
Java launch
#267
IvoryC
closed
4 years ago
0
allow underscores in config file name
#266
IvoryC
opened
4 years ago
0
genmod show script in summary
#265
IvoryC
opened
4 years ago
0
fix typos in user guide
#264
IvoryC
closed
4 years ago
0
docker checkDependencies on aws
#263
IvoryC
opened
4 years ago
0
Update tests to reflect changes in docker volume mount format.
#262
IvoryC
closed
4 years ago
0
pure-docker: Horrific error message if the /workspace/path is not perfect.
#261
IvoryC
opened
4 years ago
0
ScriptBuilder interface to hold the relationship between ScriptModuleImpl and BashScriptBuilder
#260
IvoryC
opened
4 years ago
0
direct module should not run check dependencies for other modules
#259
IvoryC
opened
4 years ago
0
GenMod needs precheck script
#258
IvoryC
opened
4 years ago
0
Need to check for R packages during check dependencies
#257
IvoryC
closed
3 years ago
1
R error messages are written to file under script/ rather than file under logs
#256
IvoryC
closed
3 years ago
1
R_module did not fail when R script failed
#255
IvoryC
opened
4 years ago
0
r_module docker container doesn't have ggpubr - install fails - silently
#254
IvoryC
opened
4 years ago
0
TrimPrimers Module removed all characters from my sequences instead of Primers
#253
Debuggerapprentice
opened
4 years ago
0
Edger
#252
kezengke
closed
4 years ago
0
The property pipeline.inputTypes probably actually should be input.dataTypes
#251
IvoryC
opened
4 years ago
0
docs for Demultiplexer module don't give type or description for properties
#250
IvoryC
closed
4 years ago
1
add info to the worker-script empty or no worker scripts
#249
IvoryC
closed
4 years ago
1
set default value for metaphlan2 pkl file path
#248
IvoryC
opened
4 years ago
1
Metaphlan2 - better documentation
#247
IvoryC
opened
4 years ago
1
Metaphlan2 module - needs test in sheepdog
#246
IvoryC
opened
4 years ago
0
add metadata props table to the metadata page
#245
IvoryC
closed
4 years ago
1
Q2_Export - do qiime2 export of outputs of previous module
#244
IvoryC
opened
4 years ago
0
Q2-Import - module to do just the qiime2 import step
#243
IvoryC
opened
4 years ago
0
Q2_GenMod - Extends genmod with added features for qiime2 scripts
#242
IvoryC
opened
4 years ago
0
cluster.modules should be checked in check dependencies (per biomodule)
#241
IvoryC
closed
4 years ago
1
If no job id is returned for a cluster job, then MAIN should fail
#240
IvoryC
closed
4 years ago
1
add test for filename feature
#239
IvoryC
closed
4 years ago
0
Update bash tests
#238
IvoryC
closed
4 years ago
0
class lookup feature does not work on all systems
#237
IvoryC
closed
4 years ago
2
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