- 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: b2616d2beba83ab7d361b54778d1e759
    - path: output/spades/test.contigs.fa
      md5sum: 2690fefde046bc904e90df09a065257a
    - path: output/spades/test.scaffolds.fa
      md5sum: 2690fefde046bc904e90df09a065257a
    - path: output/spades/test.spades.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: d546f9042f5ff911757e895e7b21f620
      - path: output/spades/test.contigs.fa
        md5sum: f3e87d68521aa485d70aecd82de519b4
      - path: output/spades/test.spades.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.gene_clusters.fa
      - path: output/spades/test.spades.log

- name: coronaspades paired end
  command: nextflow run ./tests/software/spades -entry test_coronospades_paired_end -c tests/config/nextflow.config
  tags:
    - spades
    - coronaspades_paired_end
  files:
      - path: output/spades/test.assembly.gfa
        md5sum: d546f9042f5ff911757e895e7b21f620
      - path: output/spades/test.contigs.fa
        md5sum: f3e87d68521aa485d70aecd82de519b4
      - path: output/spades/test.gene_clusters.fa
      - path: output/spades/test.spades.log