Jose Espinosa-Carrasco
95e02f913f
Update comments with new style ( #497 )
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* Update comment style on functions.nf files
* Update test main.nf comments
* Add meta for ggread
2021-05-12 14:56:46 +01:00
Harshil Patel
466ab67808
Fixes for nanoseq modules ( #479 )
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* Fix minimap2 index module
* Fix minimap2 index tests
* Fix graphmap2 index module
* Fix graphmap2 module
* Fix ECLint
* Fix bedtools bamtobed module
* Fix tests for bedtools bamtobed module
* Add tag for graphmap2 align module
* Fix EClint
* Fix qcat module
* Add md5sum for graphmap2/align module
* Remove non-started test data file
* Remove md5sum for graphmap2 align
2021-04-30 15:57:43 +01:00
Yuk Kei Wan
05b067e907
add minimap2 index module ( #467 )
2021-04-30 13:18:11 +01:00
Harshil Patel
dce27b8102
Update functions.nf to be more flexible for publishing by meta keys ( #423 )
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* Update functions.nf
* Replace saveAs line in module main script
* Add spacing for ECLint
2021-04-09 17:23:56 +01:00
Patrick Hüther
8a44258548
remove params section from meta.yml ( #282 )
2021-03-19 13:16:50 +01:00
Jose Espinosa-Carrasco
572abb00b3
Remove def from module options definition in main ( #270 )
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* Remove def from module options definition in main
* Fix bismark_deduplicate tests
* Fix bwameth_align tests
* Fixing gatk4 conda tests ("=" instead of ':' in build id)
* Same as previous commit (Fix gatk4 test)
* Fix qualimap bamqc test (no md5 check for pngs)
* Fix seqkit split2 tests. Changed to new test data
* Fix samtools tests. Some were missing initOptions include
* Removing TOOL SUBTOOL template module since now it is included on tools repo
2021-03-15 12:16:43 +00:00
drpatelh
dcc580e4fb
Remove Conda build ids for all modules
2021-02-16 23:58:23 +00:00
Michael L Heuer
35ed09b06e
Fix CI test failure
2021-02-05 11:41:36 -06:00
Michael L Heuer
6b873d7d33
Remove single_end if/else
2021-02-05 11:35:11 -06:00
Harshil Patel
31520fce97
Update software/minimap2/align/main.nf
2021-02-05 10:45:34 +00:00
Michael L Heuer
bbc8c725a2
Fix lint errors
2021-02-04 13:45:39 -06:00
Michael L Heuer
d5f2f5e32d
Add minimap2 align module
2021-02-04 13:42:08 -06:00
