- name: gatk4 variantrecalibrator test_gatk4_variantrecalibrator
  command: nextflow run tests/modules/gatk4/variantrecalibrator -entry test_gatk4_variantrecalibrator -c tests/config/nextflow.config -c ./tests/modules/gatk4/variantrecalibrator/nextflow.config
  tags:
    - gatk4
    - gatk4/variantrecalibrator
  files:
    - path: output/gatk4/test.recal
      contains:
        - "#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO"
    - path: output/gatk4/test.recal.idx
    - path: output/gatk4/test.tranches
      md5sum: d238e97bf996863969dac7751e345549

- name: gatk4 variantrecalibrator test_gatk4_variantrecalibrator_allele_specific
  command: nextflow run tests/modules/gatk4/variantrecalibrator -entry test_gatk4_variantrecalibrator_allele_specific -c tests/config/nextflow.config -c ./tests/modules/gatk4/variantrecalibrator/nextflow.config
  tags:
    - gatk4
    - gatk4/variantrecalibrator
  files:
    - path: output/gatk4/test.recal
      contains:
        - "#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO"
    - path: output/gatk4/test.recal.idx
    - path: output/gatk4/test.tranches
      md5sum: 444438d46716593634a6817958099292
