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nf-core_modules/tests/software/bismark/align/test.yml

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add bismark/report (#297) * add bismark/align module * bismark/align: add tests * bismark/align: update meta.yml * bismark/align: skip checksum for alignment logs they contain timestamps * bismark/align: restore correct checksum caused some mixup in the last commit * bismark/align: add genome_preparation to filters * Fix conda version pin * change options to be a global var * remove params from meta.yml * add bismark/report * fix test filepaths * remove mysterious index files
2021-03-22 12:38:08 +00:00
- name: Run bismark align single-end test workflow
command: nextflow run ./tests/software/bismark/align -entry test_bismark_align_single_end -c tests/config/nextflow.config
tags:
- bismark
Lint modules ci (#389) * ci: Add modules lint step Moved it ahead of the nextflow install so ideally it'll fail before we bother doing any more setup * ci: _ => / * Update tests/config/pytest_software.yml Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-04-08 08:10:52 +00:00
- bismark/align
add bismark/report (#297) * add bismark/align module * bismark/align: add tests * bismark/align: update meta.yml * bismark/align: skip checksum for alignment logs they contain timestamps * bismark/align: restore correct checksum caused some mixup in the last commit * bismark/align: add genome_preparation to filters * Fix conda version pin * change options to be a global var * remove params from meta.yml * add bismark/report * fix test filepaths * remove mysterious index files
2021-03-22 12:38:08 +00:00
files:
- path: output/test_single_end/test_methylated_1_bismark_bt2.bam
md5sum: 7f9744cec5aa7908675e5fae79af36fc
- path: output/test_single_end/test_methylated_1_bismark_bt2_SE_report.txt
- name: Run bismark align paired-end test workflow
command: nextflow run ./tests/software/bismark/align -entry test_bismark_align_paired_end -c tests/config/nextflow.config
tags:
- bismark
Lint modules ci (#389) * ci: Add modules lint step Moved it ahead of the nextflow install so ideally it'll fail before we bother doing any more setup * ci: _ => / * Update tests/config/pytest_software.yml Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-04-08 08:10:52 +00:00
- bismark/align
add bismark/report (#297) * add bismark/align module * bismark/align: add tests * bismark/align: update meta.yml * bismark/align: skip checksum for alignment logs they contain timestamps * bismark/align: restore correct checksum caused some mixup in the last commit * bismark/align: add genome_preparation to filters * Fix conda version pin * change options to be a global var * remove params from meta.yml * add bismark/report * fix test filepaths * remove mysterious index files
2021-03-22 12:38:08 +00:00
files:
- path: output/test_paired_end/test_methylated_1_bismark_bt2_pe.bam
md5sum: b13d0d40dffd336375f80fc94acc295f
- path: output/test_paired_end/test_methylated_1_bismark_bt2_PE_report.txt
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