FriederikeHanssen
257078bb39
Update strelka, by enabling BP if Manta candidates are present ( #923 )
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* add BP to strelka/somatic
* merge conflicts
* update strelka modules for BP
* update strelka modules for BP
* apply suggestions from code review
2021-10-27 17:49:54 +02:00
FriederikeHanssen
754db250a0
Add Manta/somatic module + (fix tiny strelka params problem, i know bad practice :( ) ( #912 )
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* remove params statement
* add manta/somatic module
* fix strelka target bed thing
* removing checksums should make this pass
* Update modules/manta/somatic/main.nf
Co-authored-by: Matthias Hörtenhuber <mashehu@users.noreply.github.com>
* fix indentation
Co-authored-by: Matthias Hörtenhuber <mashehu@users.noreply.github.com>
2021-10-27 16:14:52 +02:00
Harshil Patel
4e9e732b76
Add strelka/somatic module ( #866 )
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* Add strelka/somatic module
* Fill out meta.yml properly
2021-10-18 22:34:23 +01:00
Harshil Patel
49da864287
Update versions key in meta.yml for all modules ( #787 )
2021-10-03 08:20:26 +01:00
Harshil Patel
7b3315591a
Remove def software lines and emit versions channel as plural ( #780 )
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* Remove def software line
* Replace version with versions in emit statement
* Fix default software names
2021-10-01 14:04:56 +01:00
Gregor Sturm
906577873b
Bulk update modules to use versions.yml ( #739 )
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* New functions.nf
* Convert code to create versions.yml
* Update meta.yml
* update output channel
* Fix more meta.yml
* Manually update remaining modules
* remove superflous echo
* Fix misformatted meta.yml files
* Fix yaml, was list instead of dict
* fix version for bcftools
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-09-27 09:41:24 +01:00
Harshil Patel
e937c7950a
Rename software/ directory to modules/ to re-organise module structure ( #567 )
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* Update README
* Rename pytest_software.yml to pytest_modules.yml
* Rename main software directory to modules
* Remove deprecated modules
* Rename tests software to modules
* Replace paths for tests in pytest_modules.yml
* Replace software with modules in Github Actions
* Replace software with modules in main.nf tests
* Rename software to modules in test.yml
2021-07-07 10:10:18 +01:00
