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
Harshil Patel
9c31cf1566
Fix version commands: round 3 ( #754 )
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* Fix version commands: round 3
* Fix seqkit/split2 modules
2021-09-28 14:37:47 +01:00
Harshil Patel
43c2779258
Fix version commands ( #749 )
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* Fix version commands
* Fix version commands: again
2021-09-27 22:10:37 +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
c5235a983d
nf-core modules bump-versions for all modules ( #630 )
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* Add blacklist of modules that shouldn't be updated to .nf-core.yml
* nf-core modules bump-versions for all modules
* Remove TODO statements identified by linting
* Fix md5sums for failing tests
* Fix more tests
2021-07-28 09:10:44 +01:00
Johnathan D
2e619add87
Add samtools ampliconclip ( #590 )
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* created template for `samtools/ampliconclip` (#584 )
* All tests passing (#584 )
* Linting fixed (#584 )
* Final linting fixed (#584 )
* Optional output flags moved to `input` (#584 )
* typo fix (#584 )
* Apply suggestions from code review
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-07-20 21:31:31 +01:00
Maxime U. Garcia
adfb8a3d65
fix: update samtools_merge ( #582 )
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* fix: update samtools_merge
* Update modules/samtools/merge/main.nf
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-07-16 14:32:17 +02:00
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
