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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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Installation fails with python 3.12
#121
ddeepwell
opened
7 months ago
0
Some package dependencies are out of date
#120
ddeepwell
opened
7 months ago
0
Failed translation of Galaxy tool with ID containing a macro
#119
ddeepwell
opened
7 months ago
0
Failed translation of Galaxy tool with output collections containing data with same name
#118
ddeepwell
opened
7 months ago
0
messages, error handling, WDL ingest
#117
GraceAHall
opened
8 months ago
0
Release v0.13.1
#116
rlupat
closed
12 months ago
0
Documentation hotfixes
#115
GraceAHall
closed
1 year ago
0
Janis pipelines workflows now translate.
#114
GraceAHall
closed
1 year ago
0
all janis-pipelines workflows translating successfully
#113
GraceAHall
closed
1 year ago
0
Release v0.13.0
#112
rlupat
closed
1 year ago
0
Inplace workflow pruning
#111
GraceAHall
closed
1 year ago
0
Redefine types in janis core
#110
GraceAHall
closed
1 year ago
0
Release v0.12.0
#109
GraceAHall
closed
1 year ago
1
Release v0.12.1
#108
rlupat
closed
1 year ago
0
Added internals for ingestion as part of translation
#107
GraceAHall
closed
1 year ago
1
ci: Fix Codecov upload and use new orb
#106
thomasrockhu-codecov
closed
5 months ago
0
ModuleNotFoundError: No module named 'cwl_utils.parser_v1_2'
#105
ntachukwu
opened
2 years ago
1
Re-enable test coverage
#104
kinow
opened
2 years ago
2
Add exception handling to fromwdl
#103
illusional
closed
2 years ago
0
Bump version for release
#102
illusional
opened
2 years ago
0
Fix for no memory + memory expression
#101
illusional
closed
2 years ago
2
Fix CWL stdout / stderr selection
#100
illusional
opened
2 years ago
1
fromwdl: default memory value
#99
mr-c
closed
2 years ago
0
fromwdl: allow cpus to refer to a WDL expression
#98
mr-c
closed
2 years ago
1
fromwdl: missing optional inputs should result in empty conversion of WDL expressions, not half-empty strings with "null" inside
#97
mr-c
opened
2 years ago
2
CWL generation: fix stdout
#96
mr-c
closed
2 years ago
1
CWL generation: invalid result with output_type=File(), selector=Stdout() → "outputEval: _stderr"
#95
mr-c
opened
2 years ago
1
fromwdl: Don't require runtime.disks
#94
mr-c
closed
2 years ago
0
fromwdl: requires runtime.disks, yet that is optional in the spec
#93
mr-c
closed
2 years ago
0
fromwdl: can't handle single character identifiers
#92
mr-c
opened
2 years ago
1
Fix co-localisation of WDL secondary files
#91
illusional
opened
2 years ago
3
convert to WDL: force co-localization of secondary_files
#90
mr-c
opened
2 years ago
2
Avoid creating file in user desktop, fix typos and tests location
#89
kinow
closed
2 years ago
0
Nextflow basic
#88
junyk
closed
3 years ago
0
move variables used by input selectors to the top
#87
junyk
closed
3 years ago
0
Release v0.12.0
#86
junyk
closed
1 year ago
0
Nextflow: handle arguments of subworkflow within subworkflow
#85
junyk
closed
3 years ago
0
Add runtime variables to python code tool process directive
#84
junyk
closed
3 years ago
0
Nextflow: add runtime params as directives in nextflow process
#83
junyk
closed
3 years ago
0
make sure ToolArgument select only the primary file
#82
junyk
closed
3 years ago
0
Update import path
#81
junyk
closed
3 years ago
0
Nextflow translations
#80
junyk
closed
3 years ago
3
Release v0.11.4
#79
junyk
closed
3 years ago
0
Add a preprocessor to find total size of an array of files
#78
xinzhel97
closed
3 years ago
0
use pytest to run unit tests
#77
junyk
closed
3 years ago
0
Question: Is there a way to use your tool to convert WDL to CWL format
#76
michael-kotliar
closed
3 years ago
4
Add a generic test for File data type
#75
xinzhel97
closed
3 years ago
1
Fix unittests
#74
junyk
closed
3 years ago
0
Add minimal test to Tool class and array wrapper to Array class
#73
xinzhel97
closed
3 years ago
0
Allow TTestExpectedOutput to take generic parameters for preprocessors
#72
xinzhel97
closed
3 years ago
8
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