- name: bowtie align single-end
  command: nextflow run ./tests/modules/bowtie/align -entry test_bowtie_align_single_end -c ./tests/config/nextflow.config -c ./tests/modules/bowtie/align/nextflow.config
  tags:
    - bowtie
    - bowtie/align
  files:
    - path: ./output/bowtie/test.bam
    - path: ./output/bowtie/test.out
      md5sum: 4b9140ceadb8a18ae9330885370f8a0b
    - path: ./output/bowtie/bowtie/genome.3.ebwt
      md5sum: 4ed93abba181d8dfab2e303e33114777
    - path: ./output/bowtie/bowtie/genome.2.ebwt
      md5sum: 02b44af9f94c62ecd3c583048e25d4cf
    - path: ./output/bowtie/bowtie/genome.rev.2.ebwt
      md5sum: 9e6b0c4c1ddb99ae71ff8a4fe5ec6459
    - path: ./output/bowtie/bowtie/genome.4.ebwt
      md5sum: c25be5f8b0378abf7a58c8a880b87626
    - path: ./output/bowtie/bowtie/genome.rev.1.ebwt
      md5sum: b37aaf11853e65a3b13561f27a912b06
    - path: ./output/bowtie/bowtie/genome.1.ebwt
      md5sum: d9b76ecf9fd0413240173273b38d8199

- name: bowtie align paired-end
  command: nextflow run ./tests/modules/bowtie/align -entry test_bowtie_align_single_end -c ./tests/config/nextflow.config -c ./tests/modules/bowtie/align/nextflow.config
  tags:
    - bowtie
    - bowtie/align
  files:
    - path: ./output/bowtie/test.bam
    - path: ./output/bowtie/test.out
    - path: ./output/bowtie/bowtie/genome.3.ebwt
      md5sum: 4ed93abba181d8dfab2e303e33114777
    - path: ./output/bowtie/bowtie/genome.2.ebwt
      md5sum: 02b44af9f94c62ecd3c583048e25d4cf
    - path: ./output/bowtie/bowtie/genome.rev.2.ebwt
      md5sum: 9e6b0c4c1ddb99ae71ff8a4fe5ec6459
    - path: ./output/bowtie/bowtie/genome.4.ebwt
      md5sum: c25be5f8b0378abf7a58c8a880b87626
    - path: ./output/bowtie/bowtie/genome.rev.1.ebwt
      md5sum: b37aaf11853e65a3b13561f27a912b06
    - path: ./output/bowtie/bowtie/genome.1.ebwt
      md5sum: d9b76ecf9fd0413240173273b38d8199