- name: Run cutadapt single-end test workflow
  command: nextflow run ./tests/software/cutadapt -profile docker -entry test_cutadapt_se -c tests/config/nextflow.config
  tags:
    - cutadapt
    - cutadapt_se
  files:
    - path: ./output/cutadapt/test.cutadapt.log
    - path: ./output/cutadapt/test.trim.fastq.gz

- name: Run cutadapt paired-end test workflow
  command: nextflow run ./tests/software/cutadapt -profile docker -entry test_cutadapt_pe -c tests/config/nextflow.config
  tags:
    - cutadapt
    - cutadapt_pe
  files:
    - path: ./output/cutadapt/test.cutadapt.log
    - path: ./output/cutadapt/test_1.trim.fastq.gz
    - path: ./output/cutadapt/test_2.trim.fastq.gz