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PMCC-BioinformaticsCore
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janis-core
Core python modules for Janis Pipeline workflow assistant
GNU General Public License v3.0
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Fix indentation
#71
junyk
closed
3 years ago
0
Add Hail batch + translator base refactor
#70
illusional
opened
3 years ago
2
Add WDL parser to Janis
#69
illusional
closed
3 years ago
15
Toy implementation for WDL -> Janis parser
#68
illusional
closed
3 years ago
3
Translation for array of array of file
#67
junyk
opened
3 years ago
3
Allow line count to be used for array of files. Improve error messages.
#66
junyk
closed
3 years ago
0
Use sha3
#65
junyk
closed
3 years ago
0
Catch error during test interpretation
#64
junyk
closed
3 years ago
0
Update setup.py
#63
junyk
closed
3 years ago
0
Janis is not creating secondary output in WDL for array of outputs in tool
#62
illusional
opened
3 years ago
0
Fixes for CWL ingestion
#61
illusional
closed
3 years ago
0
Add "all-in-one" mechanism to janis translate
#60
illusional
opened
3 years ago
0
Add ReadJsonOperator
#59
illusional
opened
3 years ago
0
Allow Stdout / stderr to better participate in operations
#58
illusional
opened
3 years ago
0
ExpressionTool implementation for janis
#57
beccyl
closed
3 years ago
2
Minor improvements to previous PR
#56
illusional
closed
3 years ago
0
Add TTestPreProcessor.lines_diff
#55
illusional
closed
3 years ago
1
Add Nextflow translation
#54
illusional
closed
1 year ago
0
Add generators to janis-core
#53
illusional
closed
3 years ago
2
Update python version in github action
#52
junyk
closed
3 years ago
0
Handle http expected test files + unit tests + github action workflows
#51
junyk
closed
3 years ago
2
wanted: janis wait
#50
drtconway
closed
3 years ago
1
Add config to TestSuite runner
#49
illusional
closed
3 years ago
0
Unit test for the TestToolRunner class
#48
junyk
closed
3 years ago
0
Fasta File suffixes
#47
drtconway
closed
3 years ago
2
V0.11.x
#46
illusional
closed
3 years ago
3
Unit test framework
#45
junyk
closed
3 years ago
0
Implement pre-execution of some forbidden CWL expressions
#44
illusional
closed
3 years ago
1
Quoting bug
#43
drtconway
closed
3 years ago
1
Using transformations to pre-install R packages.
#42
drtconway
opened
3 years ago
0
Janis prepare changes
#41
illusional
closed
3 years ago
3
Upgrade to CWL v1.2
#40
illusional
closed
3 years ago
2
Add workflow diagram generation with DOT
#39
illusional
closed
4 years ago
4
Expressions + Conditionals + lots of bugfixes
#38
illusional
closed
4 years ago
1
Update CWL-utils to 0.6
#37
illusional
closed
4 years ago
0
Conditionals' switches do not always work if one of the step input files requires assert_not_null()
#36
rlupat
opened
4 years ago
3
Fix FilterNullOperator returntype
#35
rlupat
closed
4 years ago
0
Cromwell configuration
#34
drtconway
opened
4 years ago
4
returning a list fails
#33
drtconway
closed
4 years ago
2
Janis should throw an error if it detects two tools of same ID+version but are different
#32
illusional
opened
4 years ago
0
Default workflow
#31
drtconway
closed
3 years ago
7
File-of-filenames
#30
drtconway
closed
4 years ago
4
Threading groups of inputs
#29
drtconway
opened
4 years ago
0
Attempt to add Bash / Shell translation
#28
illusional
opened
4 years ago
2
Runtime attributes
#27
illusional
closed
4 years ago
1
translate to bash
#26
drtconway
opened
4 years ago
0
Implicit dependencies
#25
illusional
opened
4 years ago
2
Citations
#24
drtconway
opened
4 years ago
1
PythonTool broken?
#23
drtconway
closed
4 years ago
1
Re-add cwlformat
#22
illusional
closed
4 years ago
0
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