- name: ivar variants no gff no mpileup
  command: nextflow run ./tests/software/ivar/variants -entry test_ivar_variants_no_gff_no_mpileup -c tests/config/nextflow.config
  tags:
    - ivar
    - ivar/variants
  files:
    - path: output/ivar/test.tsv
      md5sum: 728f1430f2402861396d9953465ac706

- name: ivar variants no gff with mpileup
  command: nextflow run ./tests/software/ivar/variants -entry test_ivar_variants_no_gff_with_mpileup -c tests/config/nextflow.config --save_mpileup
  tags:
    - ivar
    - ivar/variants
  files:
    - path: output/ivar/test.tsv
      md5sum: 728f1430f2402861396d9953465ac706
    - path: output/ivar/test.mpileup
      md5sum: 56c4cd5a4ecb7d6364878818f46ae256

- name: ivar variants with gff with mpileup
  command: nextflow run ./tests/software/ivar/variants -entry test_ivar_variants_with_gff_with_mpileup -c tests/config/nextflow.config --gff tests/data/gff/sarscov2/MN908947.3.gff3 --save_mpileup
  tags:
    - ivar
    - ivar/variants
  files:
    - path: output/ivar/test.tsv
      md5sum: 7b59146132a60da58444bebffc3c2577
    - path: output/ivar/test.mpileup
      md5sum: 56c4cd5a4ecb7d6364878818f46ae256