guix_mirror_bot pushed a change to branch python-team
in repository guix.
discard c162249c71 gnu: python-biopython: Update to 1.86.
discard deb033c879 gnu: python-fbpca: Fix tests.
discard 89fe914770 gnu: python-slicerator: Switch to pyproject.
discard 2b394444e7 gnu: python-pandera: Update to 0.27.1.
discard ab51291805 gnu: pyscenic: Add missing python-diptest.
discard 85b5543295 gnu: Add python-diptest.
discard 6dcd479406 gnu: python-scikit-bio: Update to 0.7.1.post1.
discard eb48a3b23a gnu: endgame-singularity: Update to 1.1.
discard 69e7618115 gnu: python-biom-format: Update to 2.1.17.
discard 3cd72ebf50 gnu: Add python-anndata-minimal.
discard b5999347e7 gnu: python-anndata: Update to 0.12.7.
discard ce08f410ea gnu: python-awkward: Update to 2.8.5.
discard 8306f01352 gnu: python-awkward-cpp: Update to 47.
discard 0719caf399 gnu: crossmap: Update to 0.7.3.
discard a2aa0ffac2 gnu: python-pynbody: Use python-ipython-minimal for tests.
discard eacab19be9 gnu: python-pycollada: Update to 0.9.2.
discard fb3cdbbd0b gnu: python-notebook: Skip one test.
discard 4665388790 gnu: python-jupyter-console: Move to jupyter.
discard 4e0cf28937 gnu: python-jupyter-console: Update to 6.6.3.
discard 87a8b605c2 gnu: python-ipykernel: Update to 7.1.0.
discard d04252886a gnu: python-jupyter-client: Update to 8.7.0.
discard a94e99f115 gnu: Add python-pytest-jupyter-minimal.
discard f8ec20b06a gnu: Remove python-jupyter-console-minimal.
discard 248f569bfc gnu: python-jupyter-client: Move to jupyter.
discard ca9315a62e gnu: python-jupyter-client: Simplfy bootstrapping.
discard ddc0eb2ce7 gnu: python-jupyter-core: Update to 5.9.1.
discard 5c9357b428 gnu: python-jupyter-core: Move to jupyter.
discard 9cab5c4828 gnu: Add python-ipython-minimal.
discard 41a1db32b9 gnu: python-ipython: Update to 9.8.0.
discard 8a10d588c8 gnu: python-contourpy: Update to 1.3.3.
discard de70451eb3 gnu: python-pythran: Clean up artifacts.
discard 11c2e40965 gnu: python-pytest-doctestplus: Update to 1.6.0.
discard 7a280191fd gnu: python-pytest-randomly: Move to python-check.
discard 752c300010 gnu: python-pytest-randomly: Update to 4.0.1.
discard 879b28218a gnu: python-stcal: Adjust relax-requirments phase.
discard cbd72037ce gnu: python-jmespath: Switch to pyproject.
discard 7275c01a3b gnu: python-specutils: Remove relax-requirements phase.
discard a4b027629b gnu: python-asap3: Update to 3.13.10.
discard 92114254d3 gnu: python-ase: Update to 3.26.0.
discard e8384605a7 gnu: urh: Use python-numpy@1.
discard 573d7f467b gnu: python-loompy: Update to 3.0.8.
discard faa6d58e45 gnu: python-hnswlib: Update to 0.8.0.
discard 56588066c5 gnu: python-romancal: Remove relax-requirements phase.
discard 73e1e6bcc0 gnu: python-regions: Update to 0.11.
discard b79b81c374 gnu: python-kalepy: Skip 5 tests.
discard cc13a6a6ca gnu: python-sunkit-spex: Update to 0.4.0-0.bb544c4.
discard 055f471a29 gnu: python-numdifftools: Update to 0.9.42.
discard b2351f86b5 gnu: python-meshio: Skip some tests.
discard b50f1fc847 gnu: python-lofar-h5plot: Use python-numpy@1.
discard 8f726915b9 gnu: python-losoto: Update to 2.6.0.
discard f4dbc344df gnu: Add python-lofar-parameterset.
discard 845a51dd60 gnu: python-glue-astronomy: Skip 3 tests.
discard 5406a653ba gnu: python-seaborn: Skip 3 tests.
discard 8fff8ab1bd gnu: veusz: Update to 4.2.
discard 9e1a5112a6 gnu: websockify: Update to 0.13.0.
discard ecccb52a9a gnu: python-jwcrypto: Adjust inputs.
discard 4d512edcda gnu: python-modin: Update to 0.37.1.
discard 162c805f92 gnu: python-pyopengl: Skip one test.
discard c9d27fdb5c gnu: python-cleanlab: Fix build.
discard aac95f8bf7 gnu: python-arviz: Update to 0.22.0.
discard ee8a9fac84 gnu: python-arboreto: Update to 0.1.6-0.79f916b.
discard 065fa8a891 gnu: python-naima: Update to 0.10.3.
discard a7d8e9c7fe gnu: python-xarray-einstats: Update to 0.9.1.
discard ec755bb49c gnu: python-spectral-cube: Update to 0.6.7.
discard 94758a2ec7 gnu: python-reproject: Update to 0.19.0.
discard 732b5d29a2 gnu: python-dask-image: Update to 2025.11.0.
discard af3134b37d gnu: python-xarray: Update to 2025.12.0.
discard 5b6d6f3d71 gnu: catch2: Update to 2.13.10.
discard 2042542b9b gnu: python-numba: Update to 0.62.1.
discard f92ebfd7de gnu: python-llvmlite: Update to 0.45.0.
discard d4c39044c5 gnu: pyscenic: Update to 0.12.1-2.06bafba4.
discard 8e4dfe7d54 gnu: python-tables: Update to 3.10.2-0.aad9079.
discard 47dcc323ab gnu: python-annoy: Add python-h5py.
discard 450984ea7e gnu: cpat: Update to 3.0.5.
discard bb1e607a6a gnu: python-linetools: Skip 2 tests.
discard 5b52e2f405 gnu: python-kanon: Use python-numpy@1.
discard 613ab62b12 gnu: python-zodipy: Remove relax-requirements phase.
discard b727613b94 gnu: python-jacobi: Fix tests.
discard eca36fbd67 gnu: python-statmorph: Adjust inputs.
discard 3b6372e799 gnu: python-scikit-image-next: Deprecate by
python-scikit-image.
discard be6defc124 gnu: python-scikit-image: Update to 0.25.2.
discard 4a91bc56c9 gnu: python-fits-schema: Update to 0.5.6-0.ccffe04.
discard b216970d32 gnu: python-astrodata: Use python-numpy@1.
discard 2e09f12728 gnu: python-jwst: Remove relax-requirements phase.
discard b968f51b88 gnu: python-gwcs: Remove relax-requirements phase.
discard 4a4a6570a6 gnu: python-fgivenx: Update to 2.4.2-0.cf51dbf.
discard 62cecf9ea7 gnu: genetic: Use python-pynbody@2.
discard aee685487c gnu: python-esutil: Fix build with gcc-14.
discard e0f3f6ba6f gnu: python-nox: Update to 2025.11.12.
discard b3726ba0f2 gnu: python-ctapipe: Update to 0.28.0.
discard 7d46b83cb0 gnu: python-cesium: Update to 0.12.4.
discard 571d2e43b9 gnu: blender: Use python-numpy@1.
discard 130267c1e8 gnu: checkm: Update to 1.2.4.
discard 7e4d544609 gnu: python-blacksheep: Update to 2.4.5.
discard 5419147b5b gnu: didjvu: Update to 0.11.0.
discard 95f3ac959d gnu: Add python-py3exiv2.
discard 8703cbcf7d gnu: python-guardpost: Update to 1.0.4.
discard 35c0d74a83 gnu: python-astroml: Fix build.
discard d5b49988d4 gnu: python-stwcs: Remove relax-requirements phase.
discard 195e565ed9 gnu: python-cloudpathlib: Fix tests.
discard 2b38b134ba gnu: python-algopy: Update to 0.7.2.
discard a6e67f20e2 gnu: python-dendropy: Update to 5.0.8.
discard ebeebceae7 gnu: python-django-ninja: Update to 1.5.1.
discard 082b034c67 gnu: python-xmp-toolkit: Update to 2.1.0.
discard 9d6d4722b1 gnu: python-astropy-6: Skip some tests.
discard bf2b4b160b gnu: python-fastapi: Update to 0.124.0.
discard 7d85255719 gnu: Add python-pydantic-extra-types.
discard 03b5194bf7 gnu: Add python-annotated-doc.
discard 278205396e gnu: Add python-cron-converter.
discard a8ac6ec911 gnu: Add python-ulid.
discard 5a1a288ecb gnu: python-casa-formats-io: Fix tests.
discard 729a619d71 gnu: python-pydantic-settings: Update to 2.12.0.
discard 480220585f gnu: python-netcdf4: Update to 1.7.2.
discard f44b5db492 gnu: netcdf: Update to 4.9.2.
discard 71ffb40cbc gnu: python-blosc2: Update to 3.12.2.
discard 3f06e28df5 gnu: c-blosc2: Update to 2.22.0.
discard cc3f7b5dc1 gnu: python-ndindex: Update to 1.10.1.
discard 968ef118da gnu: python-numexpr: Update to 2.14.1.
discard 1f21e4572f gnu: python-distributed: Update to 2025.11.0.
discard 4169a1e996 gnu: python-scikit-learn: Update to 1.7.2.
discard 51a3665e04 gnu: python-nbval: Reduce closure size.
discard 0e51ac12a3 gnu: python-pydantic-2: Deprecate by python-pydantic.
discard 13e1588e11 gnu: Add python-pydantic-1.
discard 9f11baeb7a gnu: python-pydantic: Update to 2.12.5.
discard 1ad87827c6 gnu: python-pydantic-core: Update to 2.41.5.
discard 22ce8ac217 gnu: Add python-pytest-run-parallel.
discard 849021b791 gnu: Add python-typing-inspection.
discard 9a5d722fe5 gnu: python-dask: Update to 2025.11.0.
discard 566d1b2c32 gnu: python-setuptools-scm-next: Undeprecate.
discard f8f401e086 gnu: python-blosc: Adjust inputs.
discard 1dbfdbaee0 gnu: python-h5py: Update to 3.15.1.
discard f4d492caf8 gnu: python-pytest-regressions: Move to python-check.
discard ab716c029c gnu: python-pytest-regressions: Update to 2.8.3.
discard 46391b3877 gnu: python-scipy: Update to 1.16.3.
discard 90b13fa6ba gnu: python-msgpack: Update to 1.1.2.
discard e77ff83886 gnu: python-pandas: Update to 2.3.3.
discard 4758a76a30 gnu: python-matplotlib: Update to 3.10.8.
discard 195506200e gnu: python-httptools: Update to 0.7.1.
discard 222a85c434 gnu: python-numpy-2: Deprecate by python-numpy.
discard 533c01158c gnu: python-numpy: Set NumPy 2 as default.
discard 126c229eb7 gnu: Add python-cython-next.
discard 1b2cad291a gnu: python-cython: Update to 3.1.7.
discard 3fe458c500 gnu: Add python-setuptools-79.
add 63e2092793 gnu: Add gdb-17.
add 002337a36b gnu: Add emacs-tmsu.
add 524f09d03e gnu: book-emacs-lisp-elements: Update to 2.0.1.
add 890b65e442 gnu: sfeed: Update to 2.3.
add 980c337c97 gnu: emacs-navigel: Update to 1.1.0.
add 6644217484 gnu: emacs-org-social: Update to 2.9.
add 587e02a534 gnu: emacs-osm: Update to 2.0.
add 1f83be3fbd gnu: emacs-spacious-padding: Update to 0.8.0.
add 5dc22aabe8 gnu: emacs-org-modern: Update to 1.11.
add 1569c72b0e gnu: emacs-llm: Update to 0.28.4.
add c13a809611 gnu: emacs-org-fc: Update to 0.9.2.
add ab86ad4807 gnu: emacs-attrap: Update to 1.2.
add 98468f3136 gnu: emacs-track-changes: Update to 1.5.
add b6896750e0 gnu: emacs-ultra-scroll: Update to 0.5.
add bcc6ff2156 gnu: emacs-speed-type: Update to 1.5.
new b95bfe33fa gnu: Add python-setuptools-79.
new 208d76ebc6 gnu: python-cython: Update to 3.1.7.
new c68d9b29df gnu: Add python-cython-next.
new 812712fb94 gnu: python-numpy: Set NumPy 2 as default.
new 6c8de05187 gnu: python-numpy-2: Deprecate by python-numpy.
new d1e37aab9f gnu: python-httptools: Update to 0.7.1.
new bd860c75a3 gnu: python-matplotlib: Update to 3.10.8.
new bfdc2ba4bb gnu: python-pandas: Update to 2.3.3.
new 97d9f93855 gnu: python-msgpack: Update to 1.1.2.
new aad86dc46f gnu: python-scipy: Update to 1.16.3.
new 9bf9bf0205 gnu: python-pytest-regressions: Update to 2.8.3.
new ea1f048b0f gnu: python-pytest-regressions: Move to python-check.
new a2baa24628 gnu: python-h5py: Update to 3.15.1.
new 4e1e58ac44 gnu: python-blosc: Adjust inputs.
new 5ff40d61c6 gnu: python-setuptools-scm-next: Undeprecate.
new b161b36b85 gnu: python-dask: Update to 2025.11.0.
new 28a2d56259 gnu: Add python-typing-inspection.
new 858eb0b387 gnu: Add python-pytest-run-parallel.
new b4b8a10227 gnu: python-pydantic-core: Update to 2.41.5.
new a544259a2c gnu: python-pydantic: Update to 2.12.5.
new 4607f9321a gnu: Add python-pydantic-1.
new 8cf193eb43 gnu: python-pydantic-2: Deprecate by python-pydantic.
new 6fc5d97704 gnu: python-nbval: Reduce closure size.
new 896a607e76 gnu: python-scikit-learn: Update to 1.7.2.
new 12838a1986 gnu: python-distributed: Update to 2025.11.0.
new 69bdaf2823 gnu: python-numexpr: Update to 2.14.1.
new 094601813e gnu: python-ndindex: Update to 1.10.1.
new 54f757d32f gnu: c-blosc2: Update to 2.22.0.
new 2362219a0d gnu: python-blosc2: Update to 3.12.2.
new e313e4457f gnu: netcdf: Update to 4.9.2.
new d7c5008737 gnu: python-netcdf4: Update to 1.7.2.
new 299fc50acc gnu: python-pydantic-settings: Update to 2.12.0.
new 479a9559c4 gnu: python-casa-formats-io: Fix tests.
new 5c60383d8f gnu: Add python-ulid.
new 5262ac4e07 gnu: Add python-cron-converter.
new e20b40d07b gnu: Add python-annotated-doc.
new 8c0fbac634 gnu: Add python-pydantic-extra-types.
new e2289cd325 gnu: python-fastapi: Update to 0.124.0.
new 5a7ffeb9b9 gnu: python-astropy-6: Skip some tests.
new a802f283bb gnu: python-xmp-toolkit: Update to 2.1.0.
new 32a56588d3 gnu: python-django-ninja: Update to 1.5.1.
new 96fc002148 gnu: python-dendropy: Update to 5.0.8.
new 77e34c0f61 gnu: python-algopy: Update to 0.7.2.
new 5eb7637558 gnu: python-cloudpathlib: Fix tests.
new 59b84e16f1 gnu: python-stwcs: Remove relax-requirements phase.
new 9b98a779b2 gnu: python-astroml: Fix build.
new d145907a8c gnu: python-guardpost: Update to 1.0.4.
new d2d2d845c1 gnu: Add python-py3exiv2.
new 557f67a526 gnu: didjvu: Update to 0.11.0.
new 3779ac79d4 gnu: python-blacksheep: Update to 2.4.5.
new 46c78465a3 gnu: checkm: Update to 1.2.4.
new 0d87817090 gnu: blender: Use python-numpy@1.
new c368988efc gnu: python-cesium: Update to 0.12.4.
new fb39f3a9b4 gnu: python-ctapipe: Update to 0.28.0.
new af6e87c337 gnu: python-nox: Update to 2025.11.12.
new 20fe006151 gnu: python-esutil: Fix build with gcc-14.
new 6d6eda07b1 gnu: genetic: Use python-pynbody@2.
new fab72e1870 gnu: python-fgivenx: Update to 2.4.2-0.cf51dbf.
new 40933c0c09 gnu: python-gwcs: Remove relax-requirements phase.
new 0eeaa87078 gnu: python-jwst: Remove relax-requirements phase.
new d13178bd16 gnu: python-astrodata: Use python-numpy@1.
new 1e354f2918 gnu: python-fits-schema: Update to 0.5.6-0.ccffe04.
new 1f214d5e32 gnu: python-scikit-image: Update to 0.25.2.
new 64dc7aa995 gnu: python-scikit-image-next: Deprecate by
python-scikit-image.
new 2593c5f5d8 gnu: python-statmorph: Adjust inputs.
new 67035acbb1 gnu: python-jacobi: Fix tests.
new ac036e9cc3 gnu: python-zodipy: Remove relax-requirements phase.
new 72f8030c13 gnu: python-kanon: Use python-numpy@1.
new d3098212d0 gnu: python-linetools: Skip 2 tests.
new 3e28016684 gnu: cpat: Update to 3.0.5.
new 08761197ce gnu: python-annoy: Add python-h5py.
new abc9f59c94 gnu: python-tables: Update to 3.10.2-0.aad9079.
new 3173f10232 gnu: pyscenic: Update to 0.12.1-2.06bafba4.
new 2d52f497eb gnu: python-llvmlite: Update to 0.45.0.
new 1c6b52c000 gnu: python-numba: Update to 0.62.1.
new 6e22a736dc gnu: catch2: Update to 2.13.10.
new 4a062767fc gnu: python-xarray: Update to 2025.12.0.
new 96d82c7cca gnu: python-dask-image: Update to 2025.11.0.
new 870de70bfc gnu: python-reproject: Update to 0.19.0.
new 2ed816529a gnu: python-spectral-cube: Update to 0.6.7.
new ed8f47dddd gnu: python-xarray-einstats: Update to 0.9.1.
new b1ef783628 gnu: python-naima: Update to 0.10.3.
new 32c9da8d15 gnu: python-arboreto: Update to 0.1.6-0.79f916b.
new 8504382012 gnu: python-arviz: Update to 0.22.0.
new e0d83ef174 gnu: python-cleanlab: Fix build.
new 582003cf31 gnu: python-pyopengl: Skip one test.
new aacc1f75c9 gnu: python-modin: Update to 0.37.1.
new 124cfd180b gnu: python-jwcrypto: Adjust inputs.
new f5d41ae3cc gnu: websockify: Update to 0.13.0.
new a1702c93ec gnu: veusz: Update to 4.2.
new 35b0ef46d1 gnu: python-seaborn: Skip 3 tests.
new e73cb2a6b6 gnu: python-glue-astronomy: Skip 3 tests.
new f2c64020ce gnu: Add python-lofar-parameterset.
new 60b0c9bf26 gnu: python-losoto: Update to 2.6.0.
new 47810291cd gnu: python-lofar-h5plot: Use python-numpy@1.
new 5db0cd96b0 gnu: python-meshio: Skip some tests.
new 724fe95759 gnu: python-numdifftools: Update to 0.9.42.
new e0dc5b9a14 gnu: python-sunkit-spex: Update to 0.4.0-0.bb544c4.
new 9aad5d580b gnu: python-kalepy: Skip 5 tests.
new c25c44b348 gnu: python-regions: Update to 0.11.
new b0112da83c gnu: python-romancal: Remove relax-requirements phase.
new cca63af992 gnu: python-hnswlib: Update to 0.8.0.
new ca43eaa69f gnu: python-loompy: Update to 3.0.8.
new e7fa21eac8 gnu: urh: Use python-numpy@1.
new fcdb2f97f1 gnu: python-ase: Update to 3.26.0.
new f2c35da729 gnu: python-asap3: Update to 3.13.10.
new be7845ee42 gnu: python-specutils: Remove relax-requirements phase.
new 46cb2998fe gnu: python-jmespath: Switch to pyproject.
new 1f974ec74c gnu: python-stcal: Adjust relax-requirments phase.
new 24096b6c34 gnu: python-pytest-randomly: Update to 4.0.1.
new f6f9368bc8 gnu: python-pytest-randomly: Move to python-check.
new 1b23c3d7bd gnu: python-pytest-doctestplus: Update to 1.6.0.
new 4c51a8ffb6 gnu: python-pythran: Clean up artifacts.
new 504c73261a gnu: python-contourpy: Update to 1.3.3.
new f1afcb85ff gnu: python-ipython: Update to 9.8.0.
new 8f59e68d48 gnu: Add python-ipython-minimal.
new 962bc2bfe3 gnu: python-jupyter-core: Move to jupyter.
new 1b84f53d58 gnu: python-jupyter-core: Update to 5.9.1.
new 176f753053 gnu: python-jupyter-client: Simplfy bootstrapping.
new 7d25ae0379 gnu: python-jupyter-client: Move to jupyter.
new 2d9c5264c1 gnu: Remove python-jupyter-console-minimal.
new ce43538452 gnu: Add python-pytest-jupyter-minimal.
new ed5109ace5 gnu: python-jupyter-client: Update to 8.7.0.
new 8060913486 gnu: python-ipykernel: Update to 7.1.0.
new fcc987b9e7 gnu: python-jupyter-console: Update to 6.6.3.
new 17528b544e gnu: python-jupyter-console: Move to jupyter.
new 396f2de89e gnu: Add python-jupyter-client-7.
new 91cf12ac30 gnu: python-notebook: Fix build.
new ee72121be6 gnu: python-pycollada: Update to 0.9.2.
new 37ea4a73aa gnu: python-pynbody: Use python-ipython-minimal for tests.
new 82cc29d73e gnu: crossmap: Update to 0.7.3.
new 4d8daffa1c gnu: python-awkward-cpp: Update to 47.
new d41a61ad3d gnu: python-awkward: Update to 2.8.5.
new 07607cc348 gnu: python-anndata: Update to 0.12.7.
new 9f6cdbdc53 gnu: Add python-anndata-minimal.
new e788b19ab7 gnu: python-biom-format: Update to 2.1.17.
new 3aab6a5c12 gnu: endgame-singularity: Update to 1.1.
new fb6a1a9c7c gnu: python-scikit-bio: Update to 0.7.1.post1.
new 406f47bdc4 gnu: Add python-diptest.
new 4dcebb7276 gnu: pyscenic: Add missing python-diptest.
new 36be65025e gnu: python-pandera: Update to 0.27.1.
new ee8fdd3501 gnu: python-slicerator: Switch to pyproject.
new eeb084acc2 gnu: python-fbpca: Fix tests.
new d4b1d96441 gnu: python-biopython: Update to 1.86.
new dc375f9e06 gnu: python-statsmodels: Update to 0.14.5.
new 470d62740b gnu: python-scanpy: Update to 1.11.5.
new b45b997cf4 gnu: python-circe: Update to 0.3.9.
new 277e9f7500 gnu: python-cooler: Update to 0.10.4.
This update added new revisions after undoing existing revisions.
That is to say, some revisions that were in the old version of the
branch are not in the new version. This situation occurs
when a user --force pushes a change and generates a repository
containing something like this:
* -- * -- B -- O -- O -- O (c162249c71)
\
N -- N -- N refs/heads/python-team (277e9f7500)
You should already have received notification emails for all of the O
revisions, and so the following emails describe only the N revisions
from the common base, B.
Any revisions marked "omit" are not gone; other references still
refer to them. Any revisions marked "discard" are gone forever.
The 148 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails. The revisions
listed as "add" were already present in the repository and have only
been added to this reference.
Summary of changes:
gnu/packages/bioinformatics.scm | 297 +++++++++++++++++++---------------------
gnu/packages/books.scm | 4 +-
gnu/packages/emacs-xyz.scm | 114 +++++++++------
gnu/packages/gdb.scm | 12 ++
gnu/packages/jupyter.scm | 31 ++++-
gnu/packages/statistics.scm | 4 +-
gnu/packages/suckless.scm | 4 +-
7 files changed, 262 insertions(+), 204 deletions(-)
