- name: samtools ampliconclip no stats no rejects
  command: nextflow run ./tests/modules/samtools/ampliconclip -entry test_samtools_ampliconclip_no_stats_no_rejects -c ./tests/config/nextflow.config -c ./tests/modules/samtools/ampliconclip/nextflow.config
  tags:
    - samtools
    - samtools/ampliconclip
  files:
    - path: output/samtools/test.bam
      md5sum: 678f9ab04fbe3206f0f96e170fd833e9

- name: samtools ampliconclip no stats with rejects
  command: nextflow run ./tests/modules/samtools/ampliconclip -entry test_samtools_ampliconclip_no_stats_with_rejects -c ./tests/config/nextflow.config -c ./tests/modules/samtools/ampliconclip/nextflow.config
  tags:
    - samtools
    - samtools/ampliconclip
  files:
    - path: output/samtools/test.bam
      md5sum: bbf65ea626539d96c8271e17d1fc988b
    - path: output/samtools/test.cliprejects.bam
      md5sum: a0bee15aead020d16d0c81bd9667df46

- name: samtools ampliconclip with stats with rejects
  command: nextflow run ./tests/modules/samtools/ampliconclip -entry test_samtools_ampliconclip_with_stats_with_rejects -c ./tests/config/nextflow.config -c ./tests/modules/samtools/ampliconclip/nextflow.config
  tags:
    - samtools
    - samtools/ampliconclip
  files:
    - path: output/samtools/test.bam
      md5sum: f5a3611ecad34ba2dde77096e1c7dd93
    - path: output/samtools/test.cliprejects.bam
      md5sum: 90ee7ce908b4bdb89ab41e4410de9012
    - path: output/samtools/test.clipstats.txt
      md5sum: fc23355e1743d47f2541f2cb1a7a0cda