nf-core_modules/.gitignore

.nextflow*
work/
results/
test_output/
output/
.DS_Store
*.code-workspace
tests/data/
.screenrc
.*.sw?
__pycache__
*.pyo
*.pyc
Fill out repo 2019-07-26 05:19:07 -04:00			`.nextflow*`
			`work/`
			`results/`
Add tests for fastqc module 2020-07-14 11:38:20 -04:00			`test_output/`
seacr \| Updated gitignore to ignore output folder 2020-12-17 09:23:07 -05:00			`output/`
Fill out repo 2019-07-26 05:19:07 -04:00			`.DS_Store`
Update README 2020-07-14 04:51:19 -04:00			`*.code-workspace`
New module: `isoseq3/cluster` (#801) * 📦 NEW: Add isoseq3/cluster module * 🐛FIX: Fix reports channel and add .pbi to it * 🐛FIX: Fix report channel definition * 👌IMPROVE: Move .pbi file into reports channel * 👌IMPROVE: remove --use_qvs option from command line * 👌 IMPROVE: Add in addParams removed options from command line * 👌 IMPROVE: Add some pacbio test files * 🐛 FIX: Add Pacbio index to test_data.config * 👌 IMPROVE: Re add 10000 data test * 👌 IMPROVE: Add some pbindex * 🐛 FIX: Add pbi extension to files * 👌 IMPROVE: The module accept one channel (primers moved into the first channel) * 📦 NEW: Add galgal6 chr30 test data * 📦 NEW: Add bamtools module * 👌 IMPROVE: Ignore test data * 👌 IMPROVE: Update to last templates version * 👌 IMPROVE: Update to last templates version * 👌 IMPROVE: add singletons parameter and improve outputs * 🐛 FIX: Update test with last module model * 👌 IMPROVE: Add test tag * 👌 IMPROVE: Update module to last template version * 👌 IMPROVE: Update module to last template version * 👌 IMPROVE: Update test data config * 👌 IMPROVE: Remove pbi from input files * 👌 IMPROVE: Remove unused index * 👌 IMPROVE: Final version of test datasets config * 👌 IMPROVE: Final version of test datasets config * 👌 IMPROVE: Remove useless index + Fix Typos * 👌 IMPROVE: Remove useless index + Fix Typos * 👌 IMPROVE: Fill contains args * 📦 NEW: Add isoseq3/cluster module * 🐛FIX: Fix reports channel and add .pbi to it * 🐛FIX: Fix report channel definition * 👌IMPROVE: Move .pbi file into reports channel * 👌IMPROVE: remove --use_qvs option from command line * 👌 IMPROVE: Add in addParams removed options from command line * 👌 IMPROVE: Add some pacbio test files * 🐛 FIX: Add Pacbio index to test_data.config * 👌 IMPROVE: Re add 10000 data test * 👌 IMPROVE: Add some pbindex * 🐛 FIX: Add pbi extension to files * 👌 IMPROVE: The module accept one channel (primers moved into the first channel) * 👌 IMPROVE: Update to last templates version * 👌 IMPROVE: add singletons parameter and improve outputs * 🐛 FIX: Update test with last module model * 👌 IMPROVE: Add test tag * 👌 IMPROVE: Update test data config * 👌 IMPROVE: Remove pbi from input files * 👌 IMPROVE: Remove unused index * 👌 IMPROVE: Final version of test datasets config * 👌 IMPROVE: Remove useless index + Fix Typos * 👌 IMPROVE: Fill contains args * 👌 IMPROVE: Add some pacbio test files * 🐛 FIX: Add Pacbio index to test_data.config * 👌 IMPROVE: Re add 10000 data test * 👌 IMPROVE: Add some pbindex * 🐛 FIX: Add pbi extension to files * 📦 NEW: Add galgal6 chr30 test data * 📦 NEW: Add bamtools module * 👌 IMPROVE: Ignore test data * 👌 IMPROVE: Update to last templates version * 👌 IMPROVE: Update module to last template version * 👌 IMPROVE: Update module to last template version * 👌 IMPROVE: Final version of test datasets config * 👌 IMPROVE: Remove useless index + Fix Typos * 👌 IMPROVE: Update code to new versions capture + better output channels * 👌 IMPROVE: Update with new versions.yml file * 🐛 FIX: Update meta.yml + correct typos * 👌 IMPROVE: Clean output file names + correct typo * 🐛 FIX: Remove bamtools/split module from isoseq3/cluster 2021-10-07 05:06:02 -04:00			`tests/data/`
New module to use hmmalign from HMMER to align sequences (#470) * Ignore vim tmp files * Added hmmalign module, not yet tests * Test output * Replaced functions.nf for hmmalign with upstream * Update software/hmmer/hmmalign/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update software/hmmer/hmmalign/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update software/hmmer/hmmalign/meta.yml Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update tests/software/hmmer/hmmalign/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update tests/software/hmmer/hmmalign/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update tests/software/hmmer/hmmalign/test.yml Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update tests/config/pytest_software.yml Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update software/hmmer/hmmalign/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> 2021-04-28 06:21:24 -04:00			`.screenrc`
			`.*.sw?`
Update fastqc to produce multi-version versions.yml (#665) * Update fastqc to produce multi-version versions.yml * Update readme and pull request template * Fix markdownlint * remove variable * Change publish dir to lowercase * Re-add getSoftwareName * Add custom pytest-workflow test to ensure versions.yml is valid * Add docstring * Remove __init__.py as it is not needed * Remove changes to README, since this part went to nf-co.re * Add NF_CORE_TEST env var * Fix editorconfig * Add additional consistency checks for versions.yml * Update multiqc module * Fix output channel 2021-09-24 05:01:54 -04:00			`__pycache__`
			`*.pyo`
			`*.pyc`