nf-core_modules/tests/modules/vcf2maf/test.yml

- name: vcf2maf test_vcf2maf_no_vep
  command: nextflow run ./tests/modules/vcf2maf -entry test_vcf2maf_no_vep -c ./tests/config/nextflow.config  -c ./tests/modules/vcf2maf/nextflow.config
  tags:
    - vcf2maf
  files:
    - path: output/vcf2maf/test.maf
      md5sum: c7f357efa774fd5c4003d84f05212ed0

- name: vcf2maf test_vcf2maf_vep
  command: nextflow run ./tests/modules/vcf2maf -entry test_vcf2maf_vep -c ./tests/config/nextflow.config  -c ./tests/modules/vcf2maf/nextflow.config
  tags:
    - vcf2maf
  files:
    - path: output/vcf2maf/test.maf
      md5sum: bf114692a2f421225926c9b651eff161
vcf2maf module with built in VEP (#1768) 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 2022-06-20 16:27:12 +00:00			`- name: vcf2maf test_vcf2maf_no_vep`
			`command: nextflow run ./tests/modules/vcf2maf -entry test_vcf2maf_no_vep -c ./tests/config/nextflow.config -c ./tests/modules/vcf2maf/nextflow.config`
			`tags:`
			`- vcf2maf`
			`files:`
			`- path: output/vcf2maf/test.maf`
			`md5sum: c7f357efa774fd5c4003d84f05212ed0`

			`- name: vcf2maf test_vcf2maf_vep`
			`command: nextflow run ./tests/modules/vcf2maf -entry test_vcf2maf_vep -c ./tests/config/nextflow.config -c ./tests/modules/vcf2maf/nextflow.config`
			`tags:`
			`- vcf2maf`
			`files:`
			`- path: output/vcf2maf/test.maf`
			`md5sum: bf114692a2f421225926c9b651eff161`