nf-core_modules/tests/modules/epang/test.yml

- name: epang test_epang
  command: nextflow run ./tests/modules/epang -entry test_epang -c ./tests/config/nextflow.config  -c ./tests/modules/epang/nextflow.config
  tags:
    - epang
  files:
    - path: output/epang/test.epa_info.log
      contains:
        - "INFO 3 Sequences done"
    - path: output/epang/test.epa_result.jplace
      contains:
        - '"placements":'
        - '"metadata": {"invocation": "epa-ng --model LG --threads 2 --query query.alnfaa.gz --ref-msa reference.alnfaa.gz --tree reference.newick "}'
Add epang/place (#2023) * Created epang module from template * Module seems to be working * Namechange to epang_place * Move model to meta map * Fix linting problems * Prettier * Forgot --threads! * Moved module to epang * Move reference file params * Directory output * Make all args optional * Added inputs for three other types of file arguments * Update modules/epang/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Add directory to output doc, reorder the other * Make model specification less hardcoded Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> 2022-09-08 08:05:57 +00:00			`- name: epang test_epang`
			`command: nextflow run ./tests/modules/epang -entry test_epang -c ./tests/config/nextflow.config -c ./tests/modules/epang/nextflow.config`
			`tags:`
			`- epang`
			`files:`
			`- path: output/epang/test.epa_info.log`
			`contains:`
			`- "INFO 3 Sequences done"`
			`- path: output/epang/test.epa_result.jplace`
			`contains:`
			`- '"placements":'`
			`- '"metadata": {"invocation": "epa-ng --model LG --threads 2 --query query.alnfaa.gz --ref-msa reference.alnfaa.gz --tree reference.newick "}'`