All notable changes to pipeline-Nextflow-module.
The format is based on Keep a Changelog.
This project adheres to Semantic Versioning.
- Add
indexFile
module to return index file path - Add intermediate file/directory removal module
- Add genome interval extraction module
- Add PipeVal validation module
- Add index file module
- Add standardized filename generation module
- Add exposed string sanitization function
- Add options to handle compressed files with VCF indexing workflow
- Add
bgzip
toindex_VCF_tabix
module - Add PipeVal generate-checksum module
- Add
run_validate_PipeVal_with_metadata
method
- Use
ghcr.io/uclahs-cds
as default registry - Initial pipeline set up
- Update log output directory for intermediate file removal
- File deletion module: add disk usage monitoring before and after deletion
- PipeVal module: nested log directories
- Update PipeVal to v4.0.0-rc.2
- Set
ext.capture_logs
to false for all processes to disable newsetup_process_afterscript()
behavior. - Change PipeVal command since the interface was changed.
- Change indexFile to support cram format type