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https://github.com/MillironX/nf-core_modules.git
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f19ec865aa
vcf2maf module created Additions: - vcf2maf module created - If VEP is present in PATH, it is added to command - If VEP is missing, it is ignored (recommended to skip with --inhibit-vep) - VEP version automatically added to versions.yml - Uses VEP cache during testing which is added to test-datasets in https://github.com/nf-core/test-datasets/pull/563 - Default Docker image includes VEP and vcf2maf - Test includes without VEP. Relates to #490
15 lines
601 B
YAML
15 lines
601 B
YAML
- name: vcf2maf test_vcf2maf_no_vep
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command: nextflow run ./tests/modules/vcf2maf -entry test_vcf2maf_no_vep -c ./tests/config/nextflow.config -c ./tests/modules/vcf2maf/nextflow.config
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tags:
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- vcf2maf
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files:
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- path: output/vcf2maf/test.maf
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md5sum: c7f357efa774fd5c4003d84f05212ed0
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- name: vcf2maf test_vcf2maf_vep
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command: nextflow run ./tests/modules/vcf2maf -entry test_vcf2maf_vep -c ./tests/config/nextflow.config -c ./tests/modules/vcf2maf/nextflow.config
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tags:
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- vcf2maf
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files:
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- path: output/vcf2maf/test.maf
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md5sum: bf114692a2f421225926c9b651eff161
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