- name: vsearch usearchglobal test_vsearch_usearchglobal
  command: nextflow run ./tests/modules/vsearch/usearchglobal -entry test_vsearch_usearchglobal -c ./tests/config/nextflow.config  -c ./tests/modules/vsearch/usearchglobal/nextflow.config
  tags:
    - vsearch/usearchglobal
    - vsearch
  files:
    - path: output/vsearch/test.aln
      contains:
        - "vsearch --usearch_global transcriptome.fasta --db genome.fasta --id 0.985 --threads 2 --alnout test.aln"
        - "Query >lcl|MT192765.1_cds_QIK50427.1_2"
        - "%Id   TLen  Target"
        - "100%  29829  MT192765.1"
        - "Query  3822nt >lcl|MT192765.1_cds_QIK50427.1_2"
        - "Target 29829nt >MT192765.1"
        - "Qry 21249 + CAACAGAGTTGTTATTTCTAGTGATGTTCTTGTTAACAACTAA 21291"
        - "Tgt 21506 + CAACAGAGTTGTTATTTCTAGTGATGTTCTTGTTAACAACTAA 21548"
        - "21291 cols, 21290 ids (100.0%), 1 gaps (0.0%)"

- name: vsearch usearchglobal test_vsearch_usearchglobal_userout
  command: nextflow run ./tests/modules/vsearch/usearchglobal -entry test_vsearch_usearchglobal_userout -c ./tests/config/nextflow.config  -c ./tests/modules/vsearch/usearchglobal/nextflow.config
  tags:
    - vsearch/usearchglobal
    - vsearch
  files:
    - path: output/vsearch/test.tsv
      md5sum: b6cc50f7c8d18cb82e74dab70ed4baab