nf-core_modules/tests/modules/last/postmask/test.yml

- name: last postmask test_last_postmask
  command: nextflow run tests/modules/last/postmask -entry test_last_postmask -c tests/config/nextflow.config
  tags:
    - last
    - last/postmask
  files:
    - path: output/last/contigs.genome.postmask.maf.gz
      md5sum: 3a0f42e76da9549748983ac4d7ff7473
New module last/postmask to filter alignment files (#526) The `last-postmask` tool distributed with [LAST](https://gitlab.com/mcfrith/last) filters alignments in a MAF file to remove those with too many masked (lower-case) positions compared with their score. As other filter modules like `last/split`, its output file risks to overwrite its input file as their names are constructed from the sample ID when multiple filters are chained in the pipeline. I added a check that gives a clearer error message in this case. Please let me know what you think about; I can add this test to the existing LAST modules as well. This new module is part of the work discribed in Issue #464. During this development, we fix the version of LAST to 1219 to ensure consistency. We will upgrade it later. 2021-06-08 09:14:08 +00:00			`- name: last postmask test_last_postmask`
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/last/postmask -entry test_last_postmask -c tests/config/nextflow.config`
New module last/postmask to filter alignment files (#526) The `last-postmask` tool distributed with [LAST](https://gitlab.com/mcfrith/last) filters alignments in a MAF file to remove those with too many masked (lower-case) positions compared with their score. As other filter modules like `last/split`, its output file risks to overwrite its input file as their names are constructed from the sample ID when multiple filters are chained in the pipeline. I added a check that gives a clearer error message in this case. Please let me know what you think about; I can add this test to the existing LAST modules as well. This new module is part of the work discribed in Issue #464. During this development, we fix the version of LAST to 1219 to ensure consistency. We will upgrade it later. 2021-06-08 09:14:08 +00:00			`tags:`
			`- last`
			`- last/postmask`
			`files:`
			`- path: output/last/contigs.genome.postmask.maf.gz`
			`md5sum: 3a0f42e76da9549748983ac4d7ff7473`