- name: spades single end
  command: nextflow run ./tests/software/spades -entry test_spades_single_end -c tests/config/nextflow.config
  tags:
    - spades
    - spades_single_end
  files:
    - path: output/spades/test.assembly.gfa
      md5sum: f15ad4a198324de37c6010dafb3fe781
    - path: output/spades/test.contigs.fa
      md5sum: bc21771042b465c26dfc85beedc33d58
    - path: output/spades/test.scaffolds.fa
      md5sum: bc21771042b465c26dfc85beedc33d58
    - path: output/spades/test.spades.log
    - path: output/spades/warnings.log

- name: spades paired end
  command: nextflow run ./tests/software/spades -entry test_spades_paired_end -c tests/config/nextflow.config
  tags:
    - spades
    - spades_paired_end
  files:
      - path: output/spades/test.assembly.gfa
        md5sum: 5da5b04c6fce549c77a209034a9c1e72
      - path: output/spades/test.contigs.fa
        md5sum: 403b612d52edf390f662ab601873f09f
      - path: output/spades/test.scaffolds.fa
        md5sum: 49a9cbb29cee4d088e05e62eb4bc77c4
      - path: output/spades/test.spades.log
      - path: output/spades/warnings.log

- name: coronaspades single end
  command: nextflow run ./tests/software/spades -entry test_coronospades_single_end -c tests/config/nextflow.config
  tags:
    - spades
    - coronaspades_single_end
  files:
      - path: output/spades/test.assembly.gfa
        md5sum: 46531ec9b845c1a1cb469627688fecb7
      - path: output/spades/test.contigs.fa
        md5sum: f2c4a48ebba560aa5c8fde04dbe905fc
      - path: output/spades/test.scaffolds.fa
        md5sum: f2c4a48ebba560aa5c8fde04dbe905fc
      - path: output/spades/test.spades.log

- name: coronaspades paired end
  command: nextflow run ./tests/software/spades -entry test_coronospades_single_end -c tests/config/nextflow.config
  tags:
    - spades
    - coronaspades_paired_end
  files:
      - path: output/spades/test.assembly.gfa
        md5sum: 46531ec9b845c1a1cb469627688fecb7
      - path: output/spades/test.contigs.fa
        md5sum: f2c4a48ebba560aa5c8fde04dbe905fc
      - path: output/spades/test.scaffolds.fa
        md5sum: f2c4a48ebba560aa5c8fde04dbe905fc
      - path: output/spades/test.spades.log