nf-core_modules/tests/modules/bwamem2/mem/test.yml
Maxime U. Garcia 1765225042
Add new boolean sort_bam as input to be able to chose between sort and view in bwamem and bwamem2mem (#1125)
* feat: view is now in args2 so we can use sort

* forgot one split_cpus

* feat: update with new logic

* fix: add more info

* fix: remove split_cpus logic
2021-12-08 14:31:27 +00:00

71 lines
3.1 KiB
YAML

- name: bwamem2 mem single-end
command: nextflow run ./tests/modules/bwamem2/mem -entry test_bwamem2_mem_single_end -c ./tests/config/nextflow.config -c ./tests/modules/bwamem2/mem/nextflow.config
tags:
- bwamem2
- bwamem2/mem
files:
- path: ./output/bwamem2/test.bam
- path: ./output/bwamem2/bwamem2/genome.fasta.amb
md5sum: 3a68b8b2287e07dd3f5f95f4344ba76e
- path: ./output/bwamem2/bwamem2/genome.fasta.pac
md5sum: 983e3d2cd6f36e2546e6d25a0da78d66
- path: ./output/bwamem2/bwamem2/genome.fasta.0123
md5sum: b02870de80106104abcb03cd9463e7d8
- path: ./output/bwamem2/bwamem2/genome.fasta.bwt.2bit.64
md5sum: d097a1b82dee375d41a1ea69895a9216
- path: ./output/bwamem2/bwamem2/genome.fasta.ann
md5sum: c32e11f6c859f166c7525a9c1d583567
- name: bwamem2 mem single-end sort
command: nextflow run ./tests/modules/bwamem2/mem -entry test_bwamem2_mem_single_end_sort -c ./tests/config/nextflow.config -c ./tests/modules/bwamem2/mem/nextflow.config
tags:
- bwamem2
- bwamem2/mem
files:
- path: ./output/bwamem2/test.bam
- path: ./output/bwamem2/bwamem2/genome.fasta.amb
md5sum: 3a68b8b2287e07dd3f5f95f4344ba76e
- path: ./output/bwamem2/bwamem2/genome.fasta.pac
md5sum: 983e3d2cd6f36e2546e6d25a0da78d66
- path: ./output/bwamem2/bwamem2/genome.fasta.0123
md5sum: b02870de80106104abcb03cd9463e7d8
- path: ./output/bwamem2/bwamem2/genome.fasta.bwt.2bit.64
md5sum: d097a1b82dee375d41a1ea69895a9216
- path: ./output/bwamem2/bwamem2/genome.fasta.ann
md5sum: c32e11f6c859f166c7525a9c1d583567
- name: bwamem2 mem paired-end
command: nextflow run ./tests/modules/bwamem2/mem -entry test_bwamem2_mem_paired_end -c ./tests/config/nextflow.config -c ./tests/modules/bwamem2/mem/nextflow.config
tags:
- bwamem2
- bwamem2/mem
files:
- path: ./output/bwamem2/test.bam
- path: ./output/bwamem2/bwamem2/genome.fasta.amb
md5sum: 3a68b8b2287e07dd3f5f95f4344ba76e
- path: ./output/bwamem2/bwamem2/genome.fasta.pac
md5sum: 983e3d2cd6f36e2546e6d25a0da78d66
- path: ./output/bwamem2/bwamem2/genome.fasta.0123
md5sum: b02870de80106104abcb03cd9463e7d8
- path: ./output/bwamem2/bwamem2/genome.fasta.bwt.2bit.64
md5sum: d097a1b82dee375d41a1ea69895a9216
- path: ./output/bwamem2/bwamem2/genome.fasta.ann
md5sum: c32e11f6c859f166c7525a9c1d583567
- name: bwamem2 mem paired-end sort
command: nextflow run ./tests/modules/bwamem2/mem -entry test_bwamem2_mem_paired_end_sort -c ./tests/config/nextflow.config -c ./tests/modules/bwamem2/mem/nextflow.config
tags:
- bwamem2
- bwamem2/mem
files:
- path: ./output/bwamem2/test.bam
- path: ./output/bwamem2/bwamem2/genome.fasta.amb
md5sum: 3a68b8b2287e07dd3f5f95f4344ba76e
- path: ./output/bwamem2/bwamem2/genome.fasta.pac
md5sum: 983e3d2cd6f36e2546e6d25a0da78d66
- path: ./output/bwamem2/bwamem2/genome.fasta.0123
md5sum: b02870de80106104abcb03cd9463e7d8
- path: ./output/bwamem2/bwamem2/genome.fasta.bwt.2bit.64
md5sum: d097a1b82dee375d41a1ea69895a9216
- path: ./output/bwamem2/bwamem2/genome.fasta.ann
md5sum: c32e11f6c859f166c7525a9c1d583567