- name: gatk4 collectreadcounts test_gatk4_collectreadcounts_hdf5
  command: nextflow run ./tests/modules/gatk4/collectreadcounts -entry test_gatk4_collectreadcounts_hdf5 -c ./tests/config/nextflow.config  -c ./tests/modules/gatk4/collectreadcounts/nextflow.config
  tags:
    - gatk4/collectreadcounts
    - gatk4
  files:
    - path: output/gatk4/test.hdf5

- name: gatk4 collectreadcounts test_gatk4_collectreadcounts_tsv
  command: nextflow run ./tests/modules/gatk4/collectreadcounts -entry test_gatk4_collectreadcounts_tsv -c ./tests/config/nextflow.config  -c ./tests/modules/gatk4/collectreadcounts/nextflow.config
  tags:
    - gatk4/collectreadcounts
    - gatk4
  files:
    - path: output/gatk4/test.tsv
      md5sum: 8e45a6164916c303387f39f02ce45841

- name: gatk4 collectreadcounts test_gatk4_collectreadcounts_cram
  command: nextflow run ./tests/modules/gatk4/collectreadcounts -entry test_gatk4_collectreadcounts_cram -c ./tests/config/nextflow.config  -c ./tests/modules/gatk4/collectreadcounts/nextflow.config
  tags:
    - gatk4/collectreadcounts
    - gatk4
  files:
    - path: output/gatk4/test.tsv
      md5sum: d9a32039b7a84f5bb74e8382e5427670