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f434d0c671
* feat added stubs to picard_liftovervcf * feat adding stubs to gatk4_mergevcfs * feat adding stubs to gatk4_filtermutectcalls * fix tests * fix output name filtermutectcalls * fix test * fix added missing [ * Update tests/modules/gatk4/mergevcfs/test.yml Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com> * Update tests/modules/gatk4/filtermutectcalls/test.yml Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com> * Update tests/modules/picard/liftovervcf/test.yml Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com> * Update modules/gatk4/filtermutectcalls/main.nf Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com> * Update modules/gatk4/filtermutectcalls/main.nf Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com> * Update modules/gatk4/mergevcfs/main.nf Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com> * Update modules/gatk4/mergevcfs/main.nf Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com> * Update modules/picard/liftovervcf/main.nf Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com> * Trying something on picard_liftovervcf * fix adding test data for stubs * fix added bracket and unindented workflow * fix picard 2.27.1 -> 2.27.0 to solve PaddingError * Update main.nf fix added tbi to stub Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com> Co-authored-by: Matthieu Muffato <mm49@sanger.ac.uk>
30 lines
1.2 KiB
YAML
30 lines
1.2 KiB
YAML
- name: gatk4 mergevcfs test_gatk4_mergevcfs
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command: nextflow run ./tests/modules/gatk4/mergevcfs -entry test_gatk4_mergevcfs -c ./tests/config/nextflow.config -c ./tests/modules/gatk4/mergevcfs/nextflow.config
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tags:
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- gatk4/mergevcfs
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- gatk4
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files:
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- path: output/gatk4/test.vcf.gz
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md5sum: 5b289bda88d3a3504f2e19ee8cff177c
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- path: output/gatk4/test.vcf.gz.tbi
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md5sum: a81673763b13086cfce9a23e72a35a16
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- path: output/gatk4/versions.yml
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- name: gatk4 mergevcfs test_gatk4_mergevcfs_no_dict
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command: nextflow run ./tests/modules/gatk4/mergevcfs -entry test_gatk4_mergevcfs_no_dict -c ./tests/config/nextflow.config -c ./tests/modules/gatk4/mergevcfs/nextflow.config
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tags:
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- gatk4/mergevcfs
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- gatk4
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files:
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- path: output/gatk4/test.vcf.gz
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md5sum: 5b289bda88d3a3504f2e19ee8cff177c
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- path: output/gatk4/versions.yml
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- name: gatk4 mergevcfs test_gatk4_mergevcfs_no_dict_stubs
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command: nextflow run ./tests/modules/gatk4/mergevcfs -entry test_gatk4_mergevcfs_no_dict_stubs -c ./tests/config/nextflow.config -c ./tests/modules/gatk4/mergevcfs/nextflow.config -stub-run
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tags:
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- gatk4/mergevcfs
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- gatk4
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files:
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- path: output/gatk4/test.vcf.gz
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- path: output/gatk4/versions.yml
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