- name: gatk4 applybqsr test_gatk4_applybqsr_spark
  command: nextflow run tests/modules/gatk4/applybqsrspark -entry test_gatk4_applybqsr_spark -c tests/config/nextflow.config -c ./tests/modules/gatk4/applybqsrspark/nextflow.config
  tags:
    - gatk4
    - gatk4/applybqsrspark
  files:
    - path: output/gatk4/test.bam
      md5sum: 1901c819fcba0fdd5e2482e6dc8285ef
    - path: output/gatk4/versions.yml

- name: gatk4 applybqsr test_gatk4_applybqsr_spark_intervals
  command: nextflow run tests/modules/gatk4/applybqsrspark -entry test_gatk4_applybqsr_spark_intervals -c tests/config/nextflow.config -c ./tests/modules/gatk4/applybqsrspark/nextflow.config
  tags:
    - gatk4
    - gatk4/applybqsrspark
  files:
    - path: output/gatk4/test.bam
      md5sum: 2ca2446f0125890280056fd7da822732
    - path: output/gatk4/versions.yml

- name: gatk4 applybqsr test_gatk4_applybqsr_spark_cram
  command: nextflow run tests/modules/gatk4/applybqsrspark -entry test_gatk4_applybqsr_spark_cram -c tests/config/nextflow.config -c ./tests/modules/gatk4/applybqsrspark/nextflow.config
  tags:
    - gatk4
    - gatk4/applybqsrspark
  files:
    - path: output/gatk4/test.cram
      md5sum: 60f7c822a9f2833e11eb7bfd16e4421f
    - path: output/gatk4/versions.yml