nf-core_modules/tests/software/strelka/germline/test.yml

## TODO nf-core: Please run the following command to build this file:
#                nf-core modules create-test-yml strelka/germline
- name: strelka germline
  command: nextflow run ./tests/software/strelka/germline -entry test_strelka_germline -c tests/config/nextflow.config
  tags:
    - strelka
    - strelka_germline
  files:
    - path: output/strelka/strelka_test_variants.vcf.gz
    - path: output/strelka/strelka_test_variants.vcf.gz.tbi
    - path: output/strelka/strelka_test_genome.vcf.gz
    - path: output/strelka/strelka_test_genome.vcf.gz.tbi
- name: strelka germline target bed
  command: nextflow run ./tests/software/strelka/germline -entry test_strelka_germline_target_bed -c tests/config/nextflow.config
  tags:
    - strelka
    - strelka_germline
  files:
    - path: output/strelka/strelka_test_variants.vcf.gz
    - path: output/strelka/strelka_test_variants.vcf.gz.tbi
    - path: output/strelka/strelka_test_genome.vcf.gz
    - path: output/strelka/strelka_test_genome.vcf.gz.tbi
Strelka germline (#340) * nf-core template created * boilerplate and sarek_dsl2 code merged * adding an option to give it args * bai got away * seperating vcf files and vcf index files into seperate streams * some minor spacefixes * adding standard information about the module * removing typos * some basic tests based on tiddit tests * removed the bed parameter, should be provided via options.args instead * removing typos * adding indexed bam file instead * Adding changing out fasta with reference to deal with empty fasta input * adding the correct fasta * removing the empty test * adding the correct data to the testoutput and removing the md5sum since it constantly changes * adding target_bed to input * adding info on target bed * adding target bed to test * adding more files to the test * adding meta for target bed test * adding a test for target_bed * typo * fixing pytest with master 2021-03-24 05:07:29 +00:00			`## TODO nf-core: Please run the following command to build this file:`
			`# nf-core modules create-test-yml strelka/germline`
			`- name: strelka germline`
			`command: nextflow run ./tests/software/strelka/germline -entry test_strelka_germline -c tests/config/nextflow.config`
			`tags:`
			`- strelka`
			`- strelka_germline`
			`files:`
			`- path: output/strelka/strelka_test_variants.vcf.gz`
			`- path: output/strelka/strelka_test_variants.vcf.gz.tbi`
			`- path: output/strelka/strelka_test_genome.vcf.gz`
			`- path: output/strelka/strelka_test_genome.vcf.gz.tbi`
			`- name: strelka germline target bed`
			`command: nextflow run ./tests/software/strelka/germline -entry test_strelka_germline_target_bed -c tests/config/nextflow.config`
			`tags:`
			`- strelka`
			`- strelka_germline`
			`files:`
			`- path: output/strelka/strelka_test_variants.vcf.gz`
			`- path: output/strelka/strelka_test_variants.vcf.gz.tbi`
			`- path: output/strelka/strelka_test_genome.vcf.gz`
			`- path: output/strelka/strelka_test_genome.vcf.gz.tbi`