[med-svn] [Git][med-team/snakemake][debian-v7] 5 commits: d/control: build without r-cran*, they are not needed.
Michael R. Crusoe (@crusoe)
gitlab at salsa.debian.org
Sat Apr 25 12:55:01 BST 2026
Michael R. Crusoe pushed to branch debian-v7 at Debian Med / snakemake
Commits:
c71f5c81 by Michael R. Crusoe at 2026-04-25T13:07:42+02:00
d/control: build without r-cran*, they are not needed.
- - - - -
4fd167f9 by Michael R. Crusoe at 2026-04-25T13:07:55+02:00
Standards-Version: 4.7.4 (routine-update)
- - - - -
25ba9b44 by Michael R. Crusoe at 2026-04-25T13:08:10+02:00
Build-Depends: s/dh-python/dh-sequence-python3/ (routine-update)
- - - - -
89fb274d by Michael R. Crusoe at 2026-04-25T12:08:23+01:00
Set upstream metadata fields: Repository, Repository-Browse.
Changes-By: lintian-brush
Fixes: lintian: upstream-metadata-missing-repository
See-also: https://lintian.debian.org/tags/upstream-metadata-missing-repository.html
- - - - -
73da3901 by Michael R. Crusoe at 2026-04-25T13:53:54+02:00
routine-update: Ready to upload to unstable
- - - - -
4 changed files:
- debian/changelog
- debian/control
- debian/rules
- debian/upstream/metadata
Changes:
=====================================
debian/changelog
=====================================
@@ -1,3 +1,13 @@
+snakemake (7.32.4-9) unstable; urgency=medium
+
+ * Team upload.
+ * d/control: build without r-cran*, they are not needed.
+ * Standards-Version: 4.7.4 (routine-update)
+ * Build-Depends: s/dh-python/dh-sequence-python3/ (routine-update)
+ * Set upstream metadata fields: Repository, Repository-Browse.
+
+ -- Michael R. Crusoe <crusoe at debian.org> Sat, 25 Apr 2026 13:08:31 +0200
+
snakemake (7.32.4-8.1) unstable; urgency=medium
* Non-maintainer upload.
=====================================
debian/control
=====================================
@@ -1,108 +1,112 @@
Source: snakemake
+Standards-Version: 4.7.4
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-Uploaders: Kevin Murray <kdmfoss at gmail.com>, Rebecca N. Palmer <rebecca_palmer at zoho.com>
+Uploaders:
+ Kevin Murray <kdmfoss at gmail.com>,
+ Rebecca N. Palmer <rebecca_palmer at zoho.com>,
Section: science
-Priority: optional
-Build-Depends: ca-certificates,
- cwltool,
- debhelper-compat (= 13),
- dh-python,
- pybuild-plugin-pyproject,
- environment-modules,
- glpk-utils <!nocheck>,
- imagemagick,
- python3,
- python3-platformdirs <!nocheck>,
- python3-biopython <!nocheck>,
- python3-boto3 <!nocheck>,
- python3-botocore <!nocheck>,
- python3-configargparse,
- python3-connection-pool,
- python3-datrie,
- python3-docutils,
- python3-dropbox <!nocheck>,
- python3-flask <!nocheck>,
- python3-git,
- python3-jinja2 (>= 3.0~),
- python3-jsonschema,
- python3-nbformat,
- python3-packaging,
- python3-pandas <!nocheck>,
- python3-psutil,
- python3-pulp (>= 2.0~),
- python3-pygments <!nocheck>,
- python3-pytest <!nocheck>,
- python3-pytools <!nocheck>,
- python3-recommonmark <!nodoc>,
- python3-requests,
- python3-requests-mock <!nocheck>,
- python3-retry,
- python3-pytest-mock <!nocheck>,
- python3-rpy2 <!nocheck>,
- python3-setuptools,
- python3-smart-open (>= 3.0~),
- python3-sphinx (>= 3.0~) <!nodoc>,
- python3-sphinx-argparse <!nodoc>,
- python3-sphinx-bootstrap-theme <!nodoc>,
- python3-sphinx-rtd-theme <!nodoc>,
- python3-stopit,
- python3-tabulate,
- python3-throttler <!nocheck>,
- python3-toposort <!nocheck>,
- python3-wrapt,
- python3-yaml,
- python3-yte <!nocheck>,
- r-cran-rmarkdown,
- stress <!nocheck>
-Standards-Version: 4.7.2
+Build-Depends:
+ ca-certificates,
+ cwltool,
+ debhelper-compat (= 13),
+ dh-sequence-python3,
+ pybuild-plugin-pyproject,
+ environment-modules,
+ glpk-utils <!nocheck>,
+ imagemagick,
+ python3,
+ python3-platformdirs <!nocheck>,
+ python3-biopython <!nocheck>,
+ python3-boto3 <!nocheck>,
+ python3-botocore <!nocheck>,
+ python3-configargparse,
+ python3-connection-pool,
+ python3-datrie,
+ python3-docutils,
+ python3-dropbox <!nocheck>,
+ python3-flask <!nocheck>,
+ python3-git,
+ python3-jinja2,
+ python3-jsonschema,
+ python3-nbformat,
+ python3-packaging,
+ python3-pandas <!nocheck>,
+ python3-psutil,
+ python3-pulp,
+ python3-pygments <!nocheck>,
+ python3-pytest <!nocheck>,
+ python3-pytools <!nocheck>,
+ python3-recommonmark <!nodoc>,
+ python3-requests,
+ python3-requests-mock <!nocheck>,
+ python3-retry,
+ python3-pytest-mock <!nocheck>,
+ python3-rpy2 <!nocheck>,
+ python3-setuptools,
+ python3-smart-open,
+ python3-sphinx <!nodoc>,
+ python3-sphinx-argparse <!nodoc>,
+ python3-sphinx-bootstrap-theme <!nodoc>,
+ python3-sphinx-rtd-theme <!nodoc>,
+ python3-stopit,
+ python3-tabulate,
+ python3-throttler <!nocheck>,
+ python3-toposort <!nocheck>,
+ python3-wrapt,
+ python3-yaml,
+ python3-yte <!nocheck>,
+ stress <!nocheck>,
Vcs-Browser: https://salsa.debian.org/med-team/snakemake
Vcs-Git: https://salsa.debian.org/med-team/snakemake.git
Homepage: https://snakemake.readthedocs.io/
Package: snakemake
Architecture: all
-Depends: ${misc:Depends},
- ${python3:Depends},
- ca-certificates,
- python3-platformdirs,
- python3-configargparse,
- python3-datrie,
- python3-docutils,
- python3-git,
- python3-jsonschema,
- python3-nbformat,
- python3-packaging,
- python3-psutil,
- python3-pulp (>= 2.0~),
- python3-requests,
- python3-toposort,
- python3-wrapt,
- python3-yaml,
- python3-yte,
- libjs-bootstrap,
- libjs-jquery,
-Recommends: cwltool,
- imagemagick,
- python3-pytz,
- python3-yappi,
+Depends:
+ ${misc:Depends},
+ ${python3:Depends},
+ ca-certificates,
+ python3-platformdirs,
+ python3-configargparse,
+ python3-datrie,
+ python3-docutils,
+ python3-git,
+ python3-jsonschema,
+ python3-nbformat,
+ python3-packaging,
+ python3-psutil,
+ python3-pulp,
+ python3-requests,
+ python3-toposort,
+ python3-wrapt,
+ python3-yaml,
+ python3-yte,
+ libjs-bootstrap,
+ libjs-jquery,
+Recommends:
+ cwltool,
+ imagemagick,
+ python3-pytz,
+ python3-yappi,
# for the templating and reports features
- python3-jinja2 (>= 3.0~),
- python3-pygments,
+ python3-jinja2,
+ python3-pygments,
# for distributed / cloud setups or online data access
- python3-azure-storage,
- python3-biopython,
- python3-boto3,
- python3-botocore,
- python3-connection-pool,
- python3-dropbox,
- python3-flask,
- python3-ftputil,
- python3-irodsclient,
- python3-kubernetes,
- python3-retry,
- python3-urllib3
-Suggests: slurm-client,
- snakemake-doc
+ python3-azure-storage,
+ python3-biopython,
+ python3-boto3,
+ python3-botocore,
+ python3-connection-pool,
+ python3-dropbox,
+ python3-flask,
+ python3-ftputil,
+ python3-irodsclient,
+ python3-kubernetes,
+ python3-retry,
+ python3-urllib3,
+Suggests:
+ slurm-client,
+ snakemake-doc,
Description: pythonic workflow management system
Build systems like GNU Make are frequently used to create complicated
workflows, e.g. in bioinformatics. This project aims to reduce the
@@ -110,17 +114,16 @@ Description: pythonic workflow management system
specific language (DSL) in Python style, together with a fast and
comfortable execution environment.
-
Package: snakemake-doc
Architecture: all
-Depends: ${misc:Depends},
- ${sphinxdoc:Depends},
- libjs-mathjax,
-Recommends: snakemake
-Breaks: snakemake (<< 6.14)
-Replaces: snakemake (<< 6.14)
-Section: doc
Multi-Arch: foreign
+Section: doc
+Depends:
+ ${misc:Depends},
+ ${sphinxdoc:Depends},
+ libjs-mathjax,
+Recommends:
+ snakemake,
Description: documentation for pythonic workflow management system
Build systems like GNU Make are frequently used to create complicated
workflows, e.g. in bioinformatics. This project aims to reduce the
=====================================
debian/rules
=====================================
@@ -44,7 +44,7 @@ export PATH:=$(shell pybuild --print build_dir --interpreter python3 --name $(PY
export SPHINXBUILD=/usr/share/sphinx/scripts/python3/sphinx-build
%:
- dh $@ --with python3,sphinxdoc --buildsystem=pybuild
+ dh $@ --with sphinxdoc --buildsystem=pybuild
# LC_ALL is for reproducibility
execute_after_dh_auto_build:
=====================================
debian/upstream/metadata
=====================================
@@ -18,3 +18,5 @@ Registry:
Entry: SCR_003475
Repository: https://github.com/snakemake/snakemake.git
Repository-Browse: https://github.com/snakemake/snakemake
+Repository: https://github.com/snakemake/snakemake.git
+Repository-Browse: https://github.com/snakemake/snakemake
View it on GitLab: https://salsa.debian.org/med-team/snakemake/-/compare/fdc60c10ad4b8fb3e3f5682f86622966f2c05aa2...73da3901096e33edd51b000f5c3bb65c4418047d
--
View it on GitLab: https://salsa.debian.org/med-team/snakemake/-/compare/fdc60c10ad4b8fb3e3f5682f86622966f2c05aa2...73da3901096e33edd51b000f5c3bb65c4418047d
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