[med-svn] [Git][med-team/python-bioframe][upstream] New upstream version 0.8.0

[Aryan Karamtoth (@SpaciousCoder78)]

Aryan Karamtoth pushed to branch upstream at Debian Med / python-bioframe


Commits:
41f89b82 by Aryan Karamtoth at 2025-12-06T08:05:10+05:30
New upstream version 0.8.0
- - - - -


102 changed files:

- + .github/dependabot.yml
- + .github/workflows/ci.yml
- + .github/workflows/publish.yml
- .gitignore
- + .pre-commit-config.yaml
- readthedocs.yml → .readthedocs.yaml
- CHANGES.md
- + CITATION.cff
- + CONTRIBUTING.md
- LICENSE
- − MANIFEST.in
- − Makefile
- README.md
- bioframe/__init__.py
- − bioframe/_version.py
- bioframe/core/__init__.py
- bioframe/core/arrops.py
- bioframe/core/checks.py
- bioframe/core/construction.py
- bioframe/core/specs.py
- bioframe/core/stringops.py
- bioframe/extras.py
- bioframe/io/__init__.py
- + bioframe/io/assembly.py
- + bioframe/io/bed.py
- − bioframe/io/data/GRCh37.seqinfo.tsv
- + bioframe/io/data/_assemblies.yml
- bioframe/io/data/ce10.seqinfo.tsv
- bioframe/io/data/ce11.seqinfo.tsv
- bioframe/io/data/danRer10.seqinfo.tsv
- bioframe/io/data/danRer11.seqinfo.tsv
- bioframe/io/data/dm3.seqinfo.tsv
- bioframe/io/data/dm6.seqinfo.tsv
- + bioframe/io/data/hg19.cytoband.tsv
- bioframe/io/data/hg19.seqinfo.tsv
- + bioframe/io/data/hg38.cytoband.tsv
- bioframe/io/data/hg38.seqinfo.tsv
- + bioframe/io/data/hs1.cytoband.tsv
- + bioframe/io/data/hs1.seqinfo.tsv
- bioframe/io/data/mm10.seqinfo.tsv
- bioframe/io/data/mm39.seqinfo.tsv
- bioframe/io/data/mm9.seqinfo.tsv
- bioframe/io/data/sacCer3.seqinfo.tsv
- − bioframe/io/data/t2t-chm13-v1.0.seqinfo.tsv
- − bioframe/io/data/t2t-chm13-v1.1.seqinfo.tsv
- bioframe/io/data/wuhCor1.seqinfo.tsv
- bioframe/io/fileops.py
- bioframe/io/resources.py
- bioframe/io/schemas.py
- bioframe/ops.py
- bioframe/sandbox/clients.py
- bioframe/sandbox/gtf_io.py
- bioframe/sandbox/parquet_io.py
- bioframe/vis.py
- docs/api-extras.rst
- docs/api-fileops.rst
- docs/api-intervalops.rst
- docs/api-lowlevel.md
- docs/api-resources.rst
- docs/conf.py
- + docs/guide-bedtools.md
- docs/guide-definitions.rst
- docs/guide-intervalops.md
- docs/guide-io.ipynb
- docs/guide-performance.ipynb
- docs/guide-quickstart.rst
- docs/guide-recipes.md
- docs/guide-specifications.rst
- docs/index.rst
- docs/lowlevel/arrops.rst
- docs/lowlevel/specs.rst
- docs/lowlevel/stringops.rst
- − docs/requirements_doc.txt
- − docs/requirements_rtd.txt
- + docs/times100.bw
- docs/tutorials/tutorial_assign_motifs_to_peaks.ipynb
- docs/tutorials/tutorial_assign_peaks_to_genes.ipynb
- + pyproject.toml
- − requirements-dev.txt
- − requirements.txt
- − setup.cfg
- − setup.py
- + tests/test_assembly_info.py
- + tests/test_bed.py
- tests/test_core_checks.py
- tests/test_core_construction.py
- tests/test_core_specs.py
- tests/test_core_stringops.py
- + tests/test_data/bed12.bed
- + tests/test_data/bed9.bed
- + tests/test_data/jaspar.bed
- + tests/test_data/narrowPeak.bed
- tests/test_data/test.chrom.sizes
- + tests/test_data/toy.bam
- + tests/test_data/toy.bam.bai
- + tests/test_data/toy.sam
- tests/test_extras.py
- tests/test_io.py → tests/test_fileops.py
- tests/test_ops.py
- tests/test_ops_select.py
- + tests/test_resources.py
- + tests/test_vis.py


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/python-bioframe/-/commit/41f89b82bc6c8479559807196588c73c5e0f538c

-- 
View it on GitLab: https://salsa.debian.org/med-team/python-bioframe/-/commit/41f89b82bc6c8479559807196588c73c5e0f538c
You're receiving this email because of your account on salsa.debian.org.


-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://alioth-lists.debian.net/pipermail/debian-med-commit/attachments/20251210/44800243/attachment.htm>