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

- name: spades single end
  command: nextflow run ./tests/modules/spades -entry test_spades_single_end -c tests/config/nextflow.config
  tags:
    - spades
  files:
    - path: output/spades/test.assembly.gfa
      md5sum: a995d1d413031534180d2b3b715fa921
    - path: output/spades/test.contigs.fa
      md5sum: 65ba6a517c152dbe219bf4b5b92bdad7
    - path: output/spades/test.scaffolds.fa
      md5sum: 65ba6a517c152dbe219bf4b5b92bdad7
    - path: output/spades/test.spades.log

- name: spades paired end
  command: nextflow run ./tests/modules/spades -entry test_spades_paired_end -c tests/config/nextflow.config
  tags:
    - spades
  files:
    - path: output/spades/test.assembly.gfa
      md5sum: bb053ef4e9250829c980ca17fbdbe3e9
    - path: output/spades/test.contigs.fa
      md5sum: 4476d409da70d9f7fc2aa8f25bbaf7fd
    - path: output/spades/test.spades.log
Add spades module (#277) * Add spades module * Reorder gatk4 modules alphabetically * Update software/spades/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> 2021-03-18 13:48:38 +00:00			`- name: spades single end`
Rename software/ directory to modules/ to re-organise module structure (#567) * Update README * Rename pytest_software.yml to pytest_modules.yml * Rename main software directory to modules * Remove deprecated modules * Rename tests software to modules * Replace paths for tests in pytest_modules.yml * Replace software with modules in Github Actions * Replace software with modules in main.nf tests * Rename software to modules in test.yml 2021-07-07 09:10:18 +00:00			`command: nextflow run ./tests/modules/spades -entry test_spades_single_end -c tests/config/nextflow.config`
Add spades module (#277) * Add spades module * Reorder gatk4 modules alphabetically * Update software/spades/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> 2021-03-18 13:48:38 +00:00			`tags:`
			`- spades`
			`files:`
			`- path: output/spades/test.assembly.gfa`
nf-core modules bump-versions for all modules (#630) * Add blacklist of modules that shouldn't be updated to .nf-core.yml * nf-core modules bump-versions for all modules * Remove TODO statements identified by linting * Fix md5sums for failing tests * Fix more tests 2021-07-28 08:10:44 +00:00			`md5sum: a995d1d413031534180d2b3b715fa921`
Add spades module (#277) * Add spades module * Reorder gatk4 modules alphabetically * Update software/spades/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> 2021-03-18 13:48:38 +00:00			`- path: output/spades/test.contigs.fa`
nf-core modules bump-versions for all modules (#630) * Add blacklist of modules that shouldn't be updated to .nf-core.yml * nf-core modules bump-versions for all modules * Remove TODO statements identified by linting * Fix md5sums for failing tests * Fix more tests 2021-07-28 08:10:44 +00:00			`md5sum: 65ba6a517c152dbe219bf4b5b92bdad7`
Add spades module (#277) * Add spades module * Reorder gatk4 modules alphabetically * Update software/spades/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> 2021-03-18 13:48:38 +00:00			`- path: output/spades/test.scaffolds.fa`
nf-core modules bump-versions for all modules (#630) * Add blacklist of modules that shouldn't be updated to .nf-core.yml * nf-core modules bump-versions for all modules * Remove TODO statements identified by linting * Fix md5sums for failing tests * Fix more tests 2021-07-28 08:10:44 +00:00			`md5sum: 65ba6a517c152dbe219bf4b5b92bdad7`
Add spades module (#277) * Add spades module * Reorder gatk4 modules alphabetically * Update software/spades/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> 2021-03-18 13:48:38 +00:00			`- path: output/spades/test.spades.log`

			`- name: spades paired end`
Rename software/ directory to modules/ to re-organise module structure (#567) * Update README * Rename pytest_software.yml to pytest_modules.yml * Rename main software directory to modules * Remove deprecated modules * Rename tests software to modules * Replace paths for tests in pytest_modules.yml * Replace software with modules in Github Actions * Replace software with modules in main.nf tests * Rename software to modules in test.yml 2021-07-07 09:10:18 +00:00			`command: nextflow run ./tests/modules/spades -entry test_spades_paired_end -c tests/config/nextflow.config`
Add spades module (#277) * Add spades module * Reorder gatk4 modules alphabetically * Update software/spades/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> 2021-03-18 13:48:38 +00:00			`tags:`
			`- spades`
			`files:`
remove deprecated test tags (#440) * remove deprecated test tags * fix bowtie, gatk4/applybsqr * fix gatk4 baserecalibrator * fixed shovill * fixed yara/mapper * fixed kallistobustools/ref paths 2021-04-13 17:03:09 +00:00			`- path: output/spades/test.assembly.gfa`
nf-core modules bump-versions for all modules (#630) * Add blacklist of modules that shouldn't be updated to .nf-core.yml * nf-core modules bump-versions for all modules * Remove TODO statements identified by linting * Fix md5sums for failing tests * Fix more tests 2021-07-28 08:10:44 +00:00			`md5sum: bb053ef4e9250829c980ca17fbdbe3e9`
remove deprecated test tags (#440) * remove deprecated test tags * fix bowtie, gatk4/applybsqr * fix gatk4 baserecalibrator * fixed shovill * fixed yara/mapper * fixed kallistobustools/ref paths 2021-04-13 17:03:09 +00:00			`- path: output/spades/test.contigs.fa`
nf-core modules bump-versions for all modules (#630) * Add blacklist of modules that shouldn't be updated to .nf-core.yml * nf-core modules bump-versions for all modules * Remove TODO statements identified by linting * Fix md5sums for failing tests * Fix more tests 2021-07-28 08:10:44 +00:00			`md5sum: 4476d409da70d9f7fc2aa8f25bbaf7fd`
remove deprecated test tags (#440) * remove deprecated test tags * fix bowtie, gatk4/applybsqr * fix gatk4 baserecalibrator * fixed shovill * fixed yara/mapper * fixed kallistobustools/ref paths 2021-04-13 17:03:09 +00:00			`- path: output/spades/test.spades.log`