- name: Run bcftools filter test workflow
  command: nextflow run ./tests/software/bcftools/ -profile docker -entry test_bcftools_filter -c tests/config/nextflow.config
  tags:
    - bcftools
    - bcftools_filter
  files:
    - path: output/bcftools/test.vcf.gz
      md5sum: 16947ce72a127938d881113a1e6e696b

- name: Run bcftools stats test workflow
  command: nextflow run ./tests/software/bcftools/ -profile docker -entry test_bcftools_stats -c tests/config/nextflow.config
  tags:
    - bcftools
    - bcftools_stats
  files:
    - path: output/bcftools/test.bcftools_stats.txt
      md5sum: abfc6a90f84e24b2cc7e92cbce06200a

- name: Run bcftools bgzip test workflow
  command: nextflow run ./tests/software/bcftools/ -profile docker -entry test_bcftools_bgzip -c tests/config/nextflow.config
  tags:
    - bcftools
    - bcftools_bgzip
  files:
    - path: output/bcftools/test.vcf.gz
      md5sum: eb75ae1f08a1884f8edc59ed423471a2

- name: Run bcftools tabix test workflow
  command: nextflow run ./tests/software/bcftools/ -profile docker -entry test_bcftools_tabix -c tests/config/nextflow.config
  tags:
    - bcftools
    - bcftools_tabix
  files:
    - path: output/bcftools/test.vcf.gz.tbi
      md5sum: 06d52177f819730dd409157914534e8d

- name: Run bcftools consensus test workflow
  command: nextflow run ./tests/software/bcftools/ -profile docker -entry test_bcftools_consensus -c tests/config/nextflow.config
  tags:
    - bcftools
    - bcftools_consensus
  files:
    - path: output/bcftools/test.vcf.gz
      md5sum: eb75ae1f08a1884f8edc59ed423471a2
    - path: output/bcftools/test.vcf.gz.tbi
      md5sum: 06d52177f819730dd409157914534e8d
    - path: output/bcftools/test.fa
      md5sum: c9e7ac4537756a0b33bcf17117f9a065

- name: Run bcftools isec test workflow
  command: nextflow run ./tests/software/bcftools/ -profile docker -entry test_bcftools_isec -c tests/config/nextflow.config
  tags:
    - bcftools
    - bcftools_isec
  files:
    - path: output/bcftools/test1.vcf.gz
      md5sum: eb75ae1f08a1884f8edc59ed423471a2
    - path: output/bcftools/test1.vcf.gz.tbi
      md5sum: 06d52177f819730dd409157914534e8d
    - path: output/bcftools/test2.vcf.gz
      md5sum: eb75ae1f08a1884f8edc59ed423471a2
    - path: output/bcftools/test2.vcf.gz.tbi
      md5sum: 06d52177f819730dd409157914534e8d
    - path: output/bcftools/test3.vcf.gz
      md5sum: eb75ae1f08a1884f8edc59ed423471a2
    - path: output/bcftools/test/0000.vcf.gz
      md5sum: 20bd741594f456c48e1928f07f0be342
    - path: output/bcftools/test/0000.vcf.gz.tbi
      md5sum: d4357a62c60df6abcb5cc806b4681dff
    - path: output/bcftools/test/0001.vcf.gz
      md5sum: 20bd741594f456c48e1928f07f0be342
    - path: output/bcftools/test/0001.vcf.gz.tbi
      md5sum: d4357a62c60df6abcb5cc806b4681dff
    - path: output/bcftools/test/0002.vcf.gz
      md5sum: 20bd741594f456c48e1928f07f0be342
    - path: output/bcftools/test/0002.vcf.gz.tbi
      md5sum: d4357a62c60df6abcb5cc806b4681dff
    - path: md5 output/bcftools/test/README.txt
      md5sum: 9a3a041e63a18e0ad41abab96e2c5f73
    - path: md5 output/bcftools/test/sites.txt
      md5sum: 01bb949ed7825ecf692bf0640e363647