Commit graph

5 commits

Author SHA1 Message Date
Kevin
81ed0e0ff2
added meta.yml for umitools (#860)
* added meta.yml for umitools

* Update modules/umitools/dedup/meta.yml

type: list --> type: file

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>

* Update modules/umitools/dedup/meta.yml

aww thanks @drpateh :D

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>

* Update modules/umitools/dedup/meta.yml

module can only handle one BAM at a time, ergo

BAM files --> BAM file

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>

* Update meta.yml

added `pattern` for input `bam` and `bai`

* removed trailing whitespace to appease linter

* added license to new meta.yml files

* Apply suggestions from code review

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-10-23 17:30:10 +01:00
Harshil Patel
7b3315591a
Remove def software lines and emit versions channel as plural (#780)
* 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)
* 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
2ade120249
Add --paired flag to umitools dedup and bump to 1.1.2 (#583)
* Add --paired flag to umitools dedup and bump to 1.1.2

* paired not paired_end

* Fix ECLint
2021-07-16 14:21:08 +01:00
Harshil Patel
e937c7950a
Rename software/ directory to modules/ to re-organise module structure (#567)
* 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