- 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: 5d0e8bc9e6059ef3a63ee6328a3935c7

- 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: 2c998295d624c59620b7ffdb0cc080e2
    - path: output/samtools/test.cliprejects.bam
      md5sum: f3ebba8d91ad29cc4d2d00943e6f6bab

- 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: 87882973b425ab27aad6ef18faf11f25
    - path: output/samtools/test.cliprejects.bam
      md5sum: eb5e186e1a69864dc2e99a290f02ff78
    - path: output/samtools/test.clipstats.txt
      md5sum: fc23355e1743d47f2541f2cb1a7a0cda