FriederikeHanssen
9b51362a53
Proposal: Rename output from fastp module ( #1802 )
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* Rename output from fastp module
* UPdate tests
* fix alignment
* prettier
* Update modules/fastp/main.nf
Co-authored-by: Matthias De Smet <11850640+matthdsm@users.noreply.github.com>
* apply review suggestion -sf
* typo
* update md5
* update md5
* try with human data
* revert, human data also doesn't work
* use contains instead
Co-authored-by: Matthias De Smet <11850640+matthdsm@users.noreply.github.com>
2022-06-24 10:01:14 +02:00
James A. Fellows Yates
d0a1cbb703
fix fastp to allow exporting of only *.merged.fastq.gz ( #1325 )
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* fix: remove left-over unnecessary code
* Update main.nf
* Update meta.yml
2022-02-18 15:38:05 +01:00
Matthias Hörtenhuber
e745e167c1
Fix formatting in yaml files, add yamllint config ( #1279 )
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* fix yml formatting
* allow fastq.gz and fq.gz as file input, add meta.yml and test
* fix yaml files
* Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test"
This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4.
* prettier magic!
* fix comments for yamllint
* remove node version number
* fix linting errors
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00
tamuanand
cd94731789
Update meta.yml by fixing html pattern expected ( #1113 )
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Fixed html pattern typo:
Before: pattern: "*.thml"
After fix: pattern: "*.html"
2021-12-05 21:45:09 +00:00
Kevin
3aacd46da2
Backfill software licenses meta ( #876 )
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* backfilled modules with meta.yml that had no license identifier
* harmonized BSD license names
* whitespace linting at modules/unzip/meta.yml:12
* harmonized software from US NIH-NCBI/NIST to 'US-Government-Work'
* Update modules/bcftools/index/meta.yml
`bcftools` is dual-licensed, use associative array to allow for multiple licenses
Co-authored-by: Michael L Heuer <heuermh@acm.org>
Co-authored-by: Michael L Heuer <heuermh@acm.org>
2021-10-22 15:39:54 -07:00
Harshil Patel
49da864287
Update versions key in meta.yml for all modules ( #787 )
2021-10-03 08:20:26 +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
Johnathan D
6f561b3b41
enhance module fastp: add save_merged ( #598 ) ( #614 )
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* enhance module fastp: add `save_merged` (#598 )
* removed md5sum checks from log and json
2021-07-23 10:44:00 +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
