nf-core_modules/tests/software/hisat2/extractsplicesites/test.yml

- name: hisat2 extractsplicesites test_hisat2_extractsplicesites
  command: nextflow run tests/software/hisat2/extractsplicesites -entry test_hisat2_extractsplicesites -c tests/config/nextflow.config
  tags:
    - hisat2
    - hisat2_extractsplicesites
  files:
    - path: output/hisat2/genome.splice_sites.txt
      md5sum: d41d8cd98f00b204e9800998ecf8427e
Add tests for hisat2 (#366) * initial commit hisat2/build * initial commit hisat2/build * changed names for hisat2 * fixed directory structure and args * added splice site test data * added splice site inputs * replaced list with individual args * fixed removed commas * added test yml file * updated hisat2 conda version * added meta.yml * added meta.yml description * added meta.yml inputs * added meta.yml outputs * update conda version for hisat2 * removed trailing whitespace meta.yml * fixed version number for containers * added test data to test config * updated for new test logic * fix pytest issue? * fix pytest issue * fixed wrong tool in meta.yaml * updated tets.yaml name * handle build bug for testing * handle build bug for testing in yaml * moved test folder to fix build bug * use old hisat2 version to avoid conda giving inconsistent md5sum * initial commit * removed temp file * added meta yaml * add to pytest * added tests * added test yml * add align meta yaml * add hisat2 align to pytest * remove need for splice data by calling process * add hisat2 align se test * add hisat2 align pe test * update names hisat2 align * update software pytest for using mutiple modules * remove splice site test data since using module instead * remove splice site from config since using module instead * fixed extra brace * added hisat2 align test.yml * removed md5sum for bam files * updated build md5sums * Apply suggestions from code review Co-authored-by: Nicholas TODA <nicholas.toda@mnhn.fr> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> 2021-03-25 21:08:46 +00:00			`- name: hisat2 extractsplicesites test_hisat2_extractsplicesites`
			`command: nextflow run tests/software/hisat2/extractsplicesites -entry test_hisat2_extractsplicesites -c tests/config/nextflow.config`
			`tags:`
			`- hisat2`
			`- hisat2_extractsplicesites`
			`files:`
			`- path: output/hisat2/genome.splice_sites.txt`
			`md5sum: d41d8cd98f00b204e9800998ecf8427e`