- name: Run bedtools complement test workflow
  command: nextflow run ./tests/software/bedtools/ -profile docker -entry test_bedtools_complement -c tests/config/nextflow.config
  tags:
    - bedtools
    - bedtools_complement
  files:
    - path: output/bedtools/test.complement.bed
      md5sum: 55a43973abb1a08ac57290ff44f6c502

- name: Run bedtools genomecov test workflow
  command: nextflow run ./tests/software/bedtools/ -profile docker -entry test_bedtools_genomecov -c tests/config/nextflow.config
  tags:
    - bedtools
    - bedtools_genomecov
  files:
    - path: output/bedtools/test.bed
      md5sum: 8c8238ca3cdac7a0e650ade95ee941f4

- name: Run bedtools intersect test workflow
  command: nextflow run ./tests/software/bedtools/ -profile docker -entry test_bedtools_intersect -c tests/config/nextflow.config
  tags:
    - bedtools
    - bedtools_intersect
  files:
    - path: output/bedtools/test.intersect.bed
      md5sum: cc1bb317886e7df0a942b56f8a320d9c


- name: Run bedtools sort test workflow
  command: nextflow run ./tests/software/bedtools/ -profile docker -entry test_bedtools_sort -c tests/config/nextflow.config
  tags:
    - bedtools
    - bedtools_sort
  files:
    - path: output/bedtools/test.sort.bed
      md5sum: 4279202e33fcce3d19f420f1b27fddee

# TODO link to sort module
- name: Run bedtools merge test workflow
  command: nextflow run ./tests/software/bedtools/ -profile docker -entry test_bedtools_merge -c tests/config/nextflow.config
  tags:
    - bedtools
    - bedtools_merge
  files:
    - path: output/bedtools/test.merged.bed
      md5sum: 13e5a3b254fac35fe0da0c92cbaf1761

- name: Run bedtools slop test workflow (symmetrical)
  command: nextflow run ./tests/software/bedtools/ -profile docker -entry test_bedtools_slop_symmetrical -c tests/config/nextflow.config
  tags:
    - bedtools
    - bedtools_slop
  files:
    - path: output/bedtools/test.slop.bed
      md5sum: 4279202e33fcce3d19f420f1b27fddee

- name: Run bedtools slop test workflow (asymmetrical)
  command: nextflow run ./tests/software/bedtools/ -profile docker -entry test_bedtools_slop_asymmetrical -c tests/config/nextflow.config
  tags:
    - bedtools
    - bedtools_slop
  files:
    - path: output/bedtools/test.slop.bed
      md5sum: 4279202e33fcce3d19f420f1b27fddee