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

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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
feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) * feat: update gatk4 from 4.2.0.0 to 4.2.3.0 * update md5checksum * commit all files * actually checksum was good, but I suspect something fishy with the tests
2021-11-11 07:58:59 +00:00
md5sum: 5fdcf1728cf98985ce31c038eb24e05c
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_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
feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) * feat: update gatk4 from 4.2.0.0 to 4.2.3.0 * update md5checksum * commit all files * actually checksum was good, but I suspect something fishy with the tests
2021-11-11 07:58:59 +00:00
md5sum: 5fdcf1728cf98985ce31c038eb24e05c
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_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
feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) * feat: update gatk4 from 4.2.0.0 to 4.2.3.0 * update md5checksum * commit all files * actually checksum was good, but I suspect something fishy with the tests
2021-11-11 07:58:59 +00:00
md5sum: 5fdcf1728cf98985ce31c038eb24e05c
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
- path: output/gatk4/test.segmentation.table
feat: update gatk4 from 4.2.0.0 to 4.2.3.0 (#1059) * feat: update gatk4 from 4.2.0.0 to 4.2.3.0 * update md5checksum * commit all files * actually checksum was good, but I suspect something fishy with the tests
2021-11-11 07:58:59 +00:00
md5sum: 91f28bfe4727a3256810927fc5eba92f
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