Release 0.2.0: fix Hi-C QC report rendering and pipeline improvements#8
Merged
Conversation
- Fix per-sample QC report showing raw Markdown instead of HTML: the report template opened with a block-level <center> tag, which made python-markdown skip conversion of all enclosed content. Enable the md_in_html extension and add markdown="1" to the wrapping block tags. - Add table styling to the QC report CSS (collapsed borders, padded cells, dark header row). - bwa_split: replace 32-bit seqkit split2 (crashes on large inputs) with sequana fastq-split; use -5SP -M bwa options and split_fasta container. - Add qc3c report to pipeline targets for both chromap and bwa paths. - Bump version to 0.2.0, set status to Production, update changelog. - Expand test suite with lightweight setup/config-validation tests. 🤖 Generated with [Claude Code](https://claude.com/claude-code)
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
1 participant
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
Summary
Notes
PyPI 0.2.0 already published; this PR brings
mainin sync with the released code. Tagv0.2.0to follow after merge.🤖 Generated with Claude Code