nf-core_modules/tests/software/snpeff/test.yml at 95dfa7bc8d6ebef115ce6f4c1e9babc3635db623 - millironx/nf-core_modules - Milliron X Code: Code hosting for cattle or technology, but especially anything to do with both of them

millironx/nf-core_modules

mirror of https://github.com/MillironX/nf-core_modules.git synced 2024-09-22 16:12:04 +00:00

Maxime U. Garcia e0d820f9f4

Add snpeff (#546 )

* feat: add snpeff

* fix: linting

* fix: tests

* fix: add csv output

* fix: add params information

* fix: improve script

* Update software/snpeff/environment.yml

* Update software/snpeff/environment.yml

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

* Apply suggestions from code review

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

* Apply suggestions from code review

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

* Apply suggestions from code review

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

* Apply suggestions from code review

* fix test

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

2021-07-06 13:40:55 +01:00

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YAML

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 - name: snpeff test_snpeff
   command: nextflow run tests/software/snpeff -entry test_snpeff -c tests/config/nextflow.config
   tags:
     - snpeff
   files:
     - path: output/snpeff/test.ann.vcf
       md5sum: 42db84cb186e33c6992f9306627201ac
     - path: output/snpeff/test.csv