- 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: 69e4ba713447864231f6cbbaf036c51d

- 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: dd2ed9d7cc4ddc070ece2dccc577f94b
    - path: output/samtools/test.cliprejects.bam
      md5sum: 7d641f6da838f41d75eaabbd897f60bd

- 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: 6c19afc0873fba2f4e530eabf61c0735
    - path: output/samtools/test.cliprejects.bam
      md5sum: 1dfb61aa80d8e90add324ed61ed17061
    - path: output/samtools/test.clipstats.txt
      md5sum: 05ead360a98fab6a678056e326c4f1f3