Michael R. Crusoe pushed to branch upstream at Debian Med / cnvkit
Commits: 3d4bf86e by Michael R. Crusoe at 2026-05-14T10:28:29+02:00 New upstream version 0.9.13 - - - - - 103 changed files: - + .devcontainer/Dockerfile - + .devcontainer/devcontainer.json - + .dockerignore - + .github/workflows/claude-code-review.yml - + .github/workflows/claude.yml - + .github/workflows/integration-tests.yaml - .github/workflows/tests-tox.yaml - .gitignore - .readthedocs.yaml - + CLAUDE.md - Dockerfile - README.rst - cnvlib/__init__.py - cnvlib/_version.py - cnvlib/access.py - cnvlib/antitarget.py - cnvlib/autobin.py - cnvlib/batch.py - cnvlib/bintest.py - cnvlib/call.py - + cnvlib/cli/__init__.py - scripts/cnv_annotate.py → cnvlib/cli/cnv_annotate.py - scripts/cnv_expression_correlate.py → cnvlib/cli/cnv_expression_correlate.py - + cnvlib/cli/cnv_updater.py - scripts/genome_instability_index.py → cnvlib/cli/genome_instability_index.py - scripts/guess_baits.py → cnvlib/cli/guess_baits.py - scripts/reference2targets.py → cnvlib/cli/reference2targets.py - cnvlib/cluster.py - cnvlib/cmdutil.py - cnvlib/cnary.py - cnvlib/cnvkit.py - cnvlib/commands.py - cnvlib/core.py - cnvlib/coverage.py - cnvlib/descriptives.py - cnvlib/diagram.py - cnvlib/export.py - cnvlib/fix.py - cnvlib/heatmap.py - cnvlib/import_rna.py - cnvlib/importers.py - cnvlib/metrics.py - cnvlib/parallel.py - cnvlib/params.py - cnvlib/plots.py - cnvlib/reference.py - cnvlib/reports.py - cnvlib/rna.py - cnvlib/samutil.py - cnvlib/scatter.py - cnvlib/segfilters.py - cnvlib/segmentation/__init__.py - cnvlib/segmentation/haar.py - cnvlib/segmentation/hmm.py - cnvlib/segmentation/none.py - cnvlib/segmetrics.py - cnvlib/smoothing.py - cnvlib/target.py - cnvlib/vary.py - conda-env.yml - devtools/conda-recipe/meta.yaml - doc/conf.py - doc/index.rst - + environment-dev.yml - pyproject.toml - requirements/core.txt - requirements/dev.txt - requirements/min.txt - requirements/tests.txt - − requirements/typing.txt - − scripts/cnv_updater.py - skgenome/chromsort.py - + skgenome/cli/__init__.py - scripts/skg_convert.py → skgenome/cli/skg_convert.py - skgenome/combiners.py - skgenome/gary.py - skgenome/intersect.py - skgenome/merge.py - skgenome/rangelabel.py - skgenome/subdivide.py - skgenome/subtract.py - skgenome/tabio/__init__.py - skgenome/tabio/bedio.py - skgenome/tabio/genepred.py - skgenome/tabio/gff.py - skgenome/tabio/picard.py - skgenome/tabio/seg.py - skgenome/tabio/seqdict.py - skgenome/tabio/tab.py - skgenome/tabio/textcoord.py - skgenome/tabio/util.py - skgenome/tabio/vcfio.py - skgenome/tabio/vcfsimple.py - + test/formats/na12878-M-Y-trunc-nochr.bed.gz - + test/formats/na12878-M-Y-trunc-nochr.bed.gz.tbi - + test/formats/na12878-chrM-Y-trunc.bed.gz - + test/formats/na12878-chrM-Y-trunc.bed.gz.tbi - test/test_commands.py - test/test_genome.py - test/test_io.py - + test/test_parallel.py - + test/test_rna.py - tox.ini The diff was not included because it is too large. View it on GitLab: https://salsa.debian.org/med-team/cnvkit/-/commit/3d4bf86ef9e83d28f50de7c742bbf7697176edd5 -- View it on GitLab: https://salsa.debian.org/med-team/cnvkit/-/commit/3d4bf86ef9e83d28f50de7c742bbf7697176edd5 You're receiving this email because of your account on salsa.debian.org. Manage all notifications: https://salsa.debian.org/-/profile/notifications | Help: https://salsa.debian.org/help
_______________________________________________ debian-med-commit mailing list [email protected] https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
