1.13

New Features

• new view command to view workflow log, snakefile, or configuration file.
• conda environment recipes are now stored in outdir/workflow/envs for more self-contained workflow directories
  • also improves workflow-specific troubleshooting

Breaking Changes

• stitchparams has been renamed imputeparams

Internal

• improved handling of conda environments across various commands, allowing for better configuration and dependency management.
• Updated environment directory paths for better organization and clarity across all workflows
• local simuG replaced with conda installation
  • Removed dependency on the simuG.pl script for several simulation workflows, streamlining the execution process
  • rename rules and better directory structure for simulate variants

Bug Fixes

• Improved regular expression handling in file processing to enhance clarity and prevent issues.
• Corrected typos in align_stats.Rmd and routines for handling no valid barcodes

Issues and PRs

• add harpy view by @pdimens in #166
• rebase with harpy view by @pdimens in #167
• swap simuG to conda-based install by @pdimens in #168

Full Changelog: 1.12...1.13