nf-core_modules/tests/modules/sratools/fasterqdump/test.yml

- name: sratools fasterqdump test_sratools_fasterqdump_single_end
  command: nextflow run tests/modules/sratools/fasterqdump -entry test_sratools_fasterqdump_single_end -c tests/config/nextflow.config
  tags:
    - sratools
    - sratools/fasterqdump
  files:
    - path: output/sratools/SRR13255544.fastq.gz
      md5sum: 1054c7b71884acdb5eed8a378f18be82
    - path: output/untar/SRR13255544/SRR13255544.sra
      md5sum: 466d05dafb2eec672150754168010b4d

- name: sratools fasterqdump test_sratools_fasterqdump_paired_end
  command: nextflow run tests/modules/sratools/fasterqdump -entry test_sratools_fasterqdump_paired_end -c tests/config/nextflow.config
  tags:
    - sratools
    - sratools/fasterqdump
  files:
    - path: output/sratools/SRR11140744_1.fastq.gz
      md5sum: 193809c784a4ea132ab2a253fa4f55b6
    - path: output/sratools/SRR11140744_2.fastq.gz
      md5sum: 3e3b3af3413f50a1685fd7b3f1456d4e
    - path: output/untar/SRR11140744/SRR11140744.sra
      md5sum: 065666caf5b2d5dfb0cb25d5f3abe659
Add a new module for fasterq-dump (#807) * chore: use template to create fasterq module * feat: add fasterq-dump process module * docs: provide input and output descriptions * docs: add comment on `--temp` * fix: use correct variable * tests: define test output * refactor: address review comments * refactor: remove vdb-config input * chore: add new test data to config * tests: define single-end and paired-end cases * refactor: choose specific output * tests: do not expect single FASTQ for paired-end * feat: add compression * Apply suggestions from code review Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * tests: revert the test data name * Apply suggestions from code review Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> 2021-10-12 13:20:58 +00:00			`- name: sratools fasterqdump test_sratools_fasterqdump_single_end`
			`command: nextflow run tests/modules/sratools/fasterqdump -entry test_sratools_fasterqdump_single_end -c tests/config/nextflow.config`
			`tags:`
			`- sratools`
			`- sratools/fasterqdump`
			`files:`
			`- path: output/sratools/SRR13255544.fastq.gz`
			`md5sum: 1054c7b71884acdb5eed8a378f18be82`
			`- path: output/untar/SRR13255544/SRR13255544.sra`
			`md5sum: 466d05dafb2eec672150754168010b4d`

			`- name: sratools fasterqdump test_sratools_fasterqdump_paired_end`
			`command: nextflow run tests/modules/sratools/fasterqdump -entry test_sratools_fasterqdump_paired_end -c tests/config/nextflow.config`
			`tags:`
			`- sratools`
			`- sratools/fasterqdump`
			`files:`
			`- path: output/sratools/SRR11140744_1.fastq.gz`
			`md5sum: 193809c784a4ea132ab2a253fa4f55b6`
			`- path: output/sratools/SRR11140744_2.fastq.gz`
			`md5sum: 3e3b3af3413f50a1685fd7b3f1456d4e`
			`- path: output/untar/SRR11140744/SRR11140744.sra`
			`md5sum: 065666caf5b2d5dfb0cb25d5f3abe659`