- name: gatk4 indexfeaturefile test_gatk4_indexfeaturefile_bed
  command: nextflow run tests/modules/gatk4/indexfeaturefile -entry test_gatk4_indexfeaturefile_bed -c tests/config/nextflow.config -c ./tests/modules/gatk4/indexfeaturefile/nextflow.config
  tags:
    - gatk4
    - gatk4/indexfeaturefile
  files:
    - path: output/gatk4/genome.bed.idx

- name: gatk4 indexfeaturefile test_gatk4_indexfeaturefile_bed_gz
  command: nextflow run tests/modules/gatk4/indexfeaturefile -entry test_gatk4_indexfeaturefile_bed_gz -c tests/config/nextflow.config -c ./tests/modules/gatk4/indexfeaturefile/nextflow.config
  tags:
    - gatk4
    - gatk4/indexfeaturefile
  files:
    - path: output/gatk4/genome.bed.gz.tbi
      md5sum: 4bc51e2351a6e83f20e13be75861f941
    - path: output/gatk4/versions.yml
      md5sum: 9eb24dc17c96971b7991b3e154279aa7

- name: gatk4 indexfeaturefile test_gatk4_indexfeaturefile_vcf
  command: nextflow run tests/modules/gatk4/indexfeaturefile -entry test_gatk4_indexfeaturefile_vcf -c tests/config/nextflow.config -c ./tests/modules/gatk4/indexfeaturefile/nextflow.config
  tags:
    - gatk4
    - gatk4/indexfeaturefile
  files:
    - path: output/gatk4/test.genome.vcf.idx
    - path: output/gatk4/versions.yml
      md5sum: f76543e715342bf1fcdeb20385e01fe9

- name: gatk4 indexfeaturefile test_gatk4_indexfeaturefile_vcf_gz
  command: nextflow run tests/modules/gatk4/indexfeaturefile -entry test_gatk4_indexfeaturefile_vcf_gz -c tests/config/nextflow.config
  tags:
    - gatk4
    - gatk4/indexfeaturefile
  files:
    - path: output/gatk4/test.genome.vcf.gz.tbi
      md5sum: fedd68eaddf8d31257853d9da8325bd3
    - path: output/gatk4/versions.yml
      md5sum: a5d988cf62648f700ffac7257e72b2c0