nf-core_modules/tests/modules/gatk4/calculatecontamination/test.yml

- name: gatk4 calculatecontamination test_gatk4_calculatecontamination_tumor_only
  command: nextflow run tests/modules/gatk4/calculatecontamination -entry test_gatk4_calculatecontamination_tumor_only -c tests/config/nextflow.config
  tags:
    - gatk4/calculatecontamination
    - gatk4
  files:
    - path: output/gatk4/test.contamination.table
      md5sum: ff348a26dd09404239a7ed0da7d98874

- name: gatk4 calculatecontamination test_gatk4_calculatecontamination_matched_pair
  command: nextflow run tests/modules/gatk4/calculatecontamination -entry test_gatk4_calculatecontamination_matched_pair -c tests/config/nextflow.config
  tags:
    - gatk4/calculatecontamination
    - gatk4
  files:
    - path: output/gatk4/test.contamination.table
      md5sum: ff348a26dd09404239a7ed0da7d98874

- name: gatk4 calculatecontamination test_gatk4_calculatecontamination_segmentation
  command: nextflow run tests/modules/gatk4/calculatecontamination -entry test_gatk4_calculatecontamination_segmentation -c tests/config/nextflow.config
  tags:
    - gatk4/calculatecontamination
    - gatk4
  files:
    - path: output/gatk4/test.contamination.table
      md5sum: ff348a26dd09404239a7ed0da7d98874
    - path: output/gatk4/test.segmentation.table
      md5sum: 478cb4f69ec001944b9cd0e7e4de01ef
new module: gatk4/calculatecontamination (#778) * initiated files for calculate contamination * pushing local repo to remote * created script, filled in meta yml, created tests and test yml. local checks passing, needs repo side test data * added option and tests for outputting optional segmentation file * saving for test push * versions updated, test data added * Update main.nf * fixed versions info, should report correctly now * small update to main.nf outputs formatting * Apply suggestions from code review * Update test_data.config * Apply suggestions from code review Co-authored-by: GCJMackenzie <gavin.mackenzie@nibsc.org> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> 2021-10-05 21:52:00 +00:00			`- name: gatk4 calculatecontamination test_gatk4_calculatecontamination_tumor_only`
			`command: nextflow run tests/modules/gatk4/calculatecontamination -entry test_gatk4_calculatecontamination_tumor_only -c tests/config/nextflow.config`
			`tags:`
			`- gatk4/calculatecontamination`
			`- gatk4`
			`files:`
			`- path: output/gatk4/test.contamination.table`
			`md5sum: ff348a26dd09404239a7ed0da7d98874`

			`- name: gatk4 calculatecontamination test_gatk4_calculatecontamination_matched_pair`
			`command: nextflow run tests/modules/gatk4/calculatecontamination -entry test_gatk4_calculatecontamination_matched_pair -c tests/config/nextflow.config`
			`tags:`
			`- gatk4/calculatecontamination`
			`- gatk4`
			`files:`
			`- path: output/gatk4/test.contamination.table`
			`md5sum: ff348a26dd09404239a7ed0da7d98874`

			`- name: gatk4 calculatecontamination test_gatk4_calculatecontamination_segmentation`
			`command: nextflow run tests/modules/gatk4/calculatecontamination -entry test_gatk4_calculatecontamination_segmentation -c tests/config/nextflow.config`
			`tags:`
			`- gatk4/calculatecontamination`
			`- gatk4`
			`files:`
			`- path: output/gatk4/test.contamination.table`
			`md5sum: ff348a26dd09404239a7ed0da7d98874`
			`- path: output/gatk4/test.segmentation.table`
			`md5sum: 478cb4f69ec001944b9cd0e7e4de01ef`