| Age | Commit message (Expand) | Author |
|---|
| 2024-12-22 | gnu: python-cwlformat: Fix build....* gnu/packages/bioinformatics.scm (python-cwlformat): Fix build.
[native-inputs]: Add python-setuptools and python-wheel.
Change-Id: Id3e4bc116d94f4e432b2b11fc35ad1baf7f6f756
| Zheng Junjie |
| 2024-12-21 | gnu: python-pyahocorasick: Fix build....* gnu/packages/bioinformatics.scm (python-pyahocorasick)[native-inputs]: Add
python-setuptools.
Change-Id: Icbeb9cc8a9a4b08d97e561454ce46a0a234c0852
| Danny Milosavljevic |
| 2024-12-18 | gnu: python-cwl-utils: Use node-lts instead of node....* gnu/packages/bioinformatics.scm (python-cwl-utils)[inputs]: Replace node by
node-lts.
Change-Id: Ia98601db0a9233a96263051e1520a848dbc40a9c
| Jelle Licht |
| 2024-12-18 | gnu: cwltool: Use node-lts instead of node....* gnu/packages/bioinformatics.scm (cwltool)[inputs]: Replace node by node-lts.
Change-Id: Idea8c5cb456080fccd8fff6c6b2c674764ae7bce
| Jelle Licht |
| 2024-12-15 | gnu: python-deeptools: Add missing inputs....* gnu/packages/bioinformatics.scm (python-deeptools)[native-inputs]: Add
python-setuptools and python-wheel.
Change-Id: I36e563e9fbdaf9c34b9ca8437c3559e04b3f58a6
| Ricardo Wurmus |
| 2024-12-15 | gnu: python-loompy: Fix build....* gnu/packages/bioinformatics.scm (python-loompy)[build-system]: Use
pyproject-build-system.
[arguments]: Remove custom 'check phase; add phase 'numpy-compatibility.
[native-inputs]: Add python-setuptools and python-wheel.
Change-Id: I2a3121e042fb7f7980bae14cea3e256fd4c9b115
| Ricardo Wurmus |
| 2024-12-13 | gnu: Remove python-filelock-3.5....* gnu/packages/bioinformatics.scm (python-filelock-3.5): Delete variable.
(python-genomepy) [propagated-inputs]: Replace python-filelock-3.5 with
python-filelock.
Change-Id: I74b58c5143dc3f633e44cc9b92307520b160f43f
| Maxim Cournoyer |
| 2024-12-13 | gnu: Remove python-mistune-next....* gnu/packages/python-xyz.scm (python-mistune-next): Delete variable.
* gnu/packages/bioinformatics.scm (python-schema-salad)
[propagated-inputs]: Remove python-mistune-next; add python-mistune.
* gnu/packages/mail.scm (python-hyperkitty): Likewise.
* gnu/packages/syndication.scm (giara): Likewise.
Change-Id: Iccf5ffde2b2c5a8c9b8e1c0e6ebd6fa7eab9f144
| Sharlatan Hellseher |
| 2024-12-13 | gnu: build-system/pyproject: Add missing native-inputs....* gnu/packages/bioinformatics.scm (python-ega-download-client)
[native-inputs]: Add python-setuptools and python-wheel.
* gnu/packages/databases.scm (datasette)[native-inputs]: Add
python-pip.
* gnu/packages/django.scm (python-django-localflavor,
python-django-contact-form)[native-inputs]: Add python-setuptools and
python-wheel.
* gnu/packages/graphviz.scm (python-uqbar)[native-inputs]: Add
python-setuptools and python-wheel.
* gnu/packages/jupyter.scm (python-jupyterlab-server)[native-inputs]:
Add python-wheel.
(python-nbstripout)[native-inputs]: Add python-setuptools and
python-wheel.
* gnu/packages/machine-learning.scm (python-captum,
python-linear-operator, python-gpytorch)[native-inputs]: Add
python-setuptools.
* gnu/packages/music.scm (abjad, abjad-ext-rmarkers,
abjed-ext-nauert, python-mutagen)[native-inputs]: Add
python-setuptools and python-wheel.
* gnu/packages/package-management.scm
(python-conda-package-handling)[native-inputs]: Add python-setuptools
and python-wheel.
(conda)[native-inputs]: Add python-wheel.
* gnu/packages/python-check.scm (python-pyinstrument,
python-pytest-testmon, python-pytest-trio, python-nbval,
python-pytest-toolbox)[native-inputs]: Add python-setuptools and
python-wheel.
(python-nptyping)[native-inputs]: Add python-setuptools.
* gnu/packages/python-check.scm (python-dask-expr)[native-inputs]:
Add python-setuptools and python-wheel.
* gnu/packages/python-web.scm (parfive, python-aioftp, python-hupper,
python-sanic, python-mechanicalsoup, python-tinycss, python-aiostream,
python-cbor2, gunicorn)[native-inputs]: Add python-setuptools and
python-wheel.
* gnu/packages/python-xyz.scm (python-apprise, python-jaraco-classes,
python-sparse, python-shtab, python-pyan3)[native-inputs]: Add
python-setuptools.
(python-jupytext, python-orderedmultidict, python-identify, python-nodeenv,
python-cfgv, python-zarr, python-multipart, python-nbconvert, python-cram,
python-immutables, python-numpydoc, python-cairosvg, python-unidecode,
python-black, python-multidict, python-mpv-jsonipc, python-humanize,
python-cmd2)[native-inputs]: Add python-setuptools and python-wheel.
(python-partd, python-dask, python-zarr)[native-inputs]: Add
python-wheel.
(python-nbconvert)[propagated-inputs]: Add texlive-etoolbox. Remove
duplicate textlive-jknapltx.
(python-isort)[native-inputs]: Add python-pip.
* gnu/packages/simulation.scm (python-fenics-dijitso)[native-inputs]:
Add python-setuptools and python-wheel.
* gnu/packages/sphinx.scm (python-pydata-sphinx-theme,
python-sphinx-autodoc-typehints)[native-inputs]: Add
python-setuptools.
* gnu/packages/syndication.scm (tuir)[native-inputs]: Add
python-setuptools and python-wheel.
* gnu/packages/terminals.scm (python-halo)[native-inputs]: Add
python-setuptools and python-wheel.
* gnu/packages/time.scm (python-arrow, python-dateutil)
[native-inputs]: Add python-setuptools and python-wheel.
* gnu/packages/version-control.scm (pre-commit)[native-inputs]: Add
python-setuptools and python-wheel. Remove input labels.
* gnu/packages/virtualization.scm (python-qemu-qmp,
python-transient)[native-inputs]: Add python-setuptools and
python-wheel.
* gnu/packages/xorg.scm (python-xcffib)[native-inputs]: Add
python-setuptools and python-wheel.
Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
Change-Id: Id61cf8cdc47bd4c2871c0a9c8e9a5bfd51157df0
| Nicolas Graves |
| 2024-12-13 | gnu: Add python-setuptools/python-wheel where necessary....Changes to pyproject-build-system require explicit dependency on
setuptools/wheel.
Change-Id: Icd7699fc1dc56e974ae7568f2ae916dbf876bea5
| Lars-Dominik Braun |
| 2024-12-13 | build-system/pyproject: Use python-sans-pip-wrapper as default-python....Also adds python-setuptools and python-wheel to relevant packages,
either to native-inputs or to propagated inputs if the pkg_resources
Python module is loaded at runtime.
* guix/build-system/pyproject.scm (default-python): Default to
python-sans-pip-wrapper.
Change-Id: I2d986c2225114f54459dd6bb360913106e52cdf4
| Lars-Dominik Braun |
| 2024-12-10 | gnu: Fix synopsis in miscelaneous packages....* gnu/packages/astronomy.scm (calcmysky-qt5): Fix synopsis.
* gnu/packages/base.scm (hello): Fix synopsis.
* gnu/packages/bioinformatics.scm (vembrane): Fix synopsis.
* gnu/packages/browser-extensions.scm (passff): Fix synopsis.
* gnu/packages/browser-extensions.scm (noscript): Fix synopsis.
* gnu/packages/c.scm (orangeduck-mpc): Fix synopsis.
* gnu/packages/cran.scm (r-d3r): Fix synopsis.
* gnu/packages/docbook.scm (docbook-mathml-1.0): Fix synopsis.
* gnu/packages/finance.scm (flowee): Fix synopsis.
* gnu/packages/firmware.scm (seabios): Fix synopsis.
* gnu/packages/games.scm (pinball): Fix synopsis.
(morris): Fix synopsis.
* gnu/packages/gawk.scm (cppawk-egawk): Fix synopsis.
* gnu/packages/gnome.scm (gssdp): Fix synopsis.
* gnu/packages/gstreamer.scm (gst-plugins-espeak): Fix synopsis.
* gnu/packages/heads.scm (musl-cross): Fix synopsis.
* gnu/packages/irc.scm (epic5): Fix synopsis.
* gnu/packages/kde-pim.scm (itinerary): Fix synopsis.
* gnu/packages/kde-plasma.scm (mpvqt): Fix synopsis.
* gnu/packages/lesstif.scm (motif): Fix synopsis.
* gnu/packages/linux.scm (ecryptfs-utils): Fix synopsis.
* gnu/packages/linux.scm (falcosecurity-libs): Fix synopsis.
* gnu/packages/mail.scm (pan): Fix synopsis.
* gnu/packages/messaging.scm (biboumi): Fix synopsis.
* gnu/packages/ocaml.scm (ocaml-ppx-import): Fix synopsis.
* gnu/packages/pascal.scm (p2c): Fix synopsis.
* gnu/packages/pdf.scm (unpaper): Fix synopsis.
* gnu/packages/pure.scm (pure): Fix synopsis.
* gnu/packages/qt.scm (qxlsx-qt5): Fix synopsis.
* gnu/packages/smalltalk.scm (smalltalk): Fix synopsis.
* gnu/packages/sugar.scm (sugar): Fix synopsis.
* gnu/packages/terminals.scm (roxterm): Fix synopsis.
* gnu/packages/virtualization.scm (xen): Fix synopsis.
* gnu/packages/vpn.scm (sshoot): Fix synopsis.
* gnu/packages/web.scm (buku-run): Fix synopsis.
Signed-off-by: Vagrant Cascadian <vagrant@debian.org>
| Gabriel Wicki |
| 2024-12-10 | gnu: Fix synopsis in various python packages....* gnu/packages/python-compression.scm (python-inflate64): Fix synopsis.
* gnu/packages/python-science.scm (python-xarray-dataclasses): Fix synopsis.
* gnu/packages/python-web.scm (python-waybackpack): Fix synopsis.
* gnu/packages/python-xyz.scm (python-mir-eval): Fix synopsis.
(python-restructuredtext-lint): Fix synopsis. (python-pixelmatch): Fix
synopsis. (python-google-pasta): Fix synopsis. (python-xmp-toolkit): Fix
synopsis.
* gnu/packages/bioinformatics.scm (python-mgatk): Fix synopsis.
* gnu/packages/rpc.scm (python-grpc-stubs): Fix synopsis.
* gnu/packages/simulation.scm (python-commonroad-io): Fix synopsis.
Signed-off-by: Vagrant Cascadian <vagrant@debian.org>
| Gabriel Wicki |
| 2024-12-04 | gnu: Add skewer....* gnu/packages/bioinformatics.scm (skewer): New variable.
Change-Id: Ieeb95ed7449b91ea853d73ecca05e5436121df6a
| Ricardo Wurmus |
| 2024-12-03 | gnu: discrover: Add missing input....* gnu/packages/bioinformatics.scm (discrover)[native-inputs]: Add
texlive-etoolbox.
Change-Id: I42075c05a36a031c40c335a668a8b46a7603b4dd
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-btools: Disable tests....* gnu/packages/bioinformatics.scm (r-btools)[arguments]: Disable tests.
Change-Id: I0fc83672a3c09908296551b649244ae1993ac01d
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-cytoexplorer: Add missing inputs....* gnu/packages/bioinformatics.scm (r-cytoexplorer)[native-inputs]: Drop
labels; add r-cytoexplorerdata, r-mockery, and r-testthat.
[arguments]: Add phase 'skip-bad-tests.
Change-Id: I5060b1ae4ad42ae122a46db018f10910340985d6
| Ricardo Wurmus |
| 2024-12-03 | gnu: Add r-cytoexplorerdata....* gnu/packages/bioinformatics.scm (r-cytoexplorerdata): New variable.
Change-Id: I5565dff552f033c951bee5bac474cb05c7034066
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-skitools: Add missing input....* gnu/packages/bioinformatics.scm (r-skitools)[native-inputs]: Add
r-bsgenome-hsapiens-ucsc-hg19.
Change-Id: I8331e0df21bda001d6e3ec944f02791c0a9301b6
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-scseqcomm: Remove commented inputs....* gnu/packages/bioinformatics.scm (r-scseqcomm): Remove comments.
Change-Id: I537f6377da44637674a0413a30ddd6b70a620ad3
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-chromunity: Add missing input....* gnu/packages/bioinformatics.scm (r-chromunity)[native-inputs]: Add
r-testthat.
Change-Id: I5d208a5ab0cb63567ab49783d0fbe0733b08161a
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-liana: Add missing input....* gnu/packages/bioinformatics.scm (r-liana)[native-inputs]: Add r-testthat.
Change-Id: I04c9c5f60842e1ed0a0415e51c25b46b64a60104
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-circus: Add missing input....* gnu/packages/bioinformatics.scm (r-circus)[native-inputs]: Add r-testthat.
Change-Id: I7178baece0a8134923fd550e2f1cc303f32aaaea
| Ricardo Wurmus |
| 2024-12-03 | gnu: Remove r-numbat....This is a duplicate of a package in (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-numbat): Delete variable.
Change-Id: Ic1f5d9779a594432a0dd8bd0be9059423a2f5b34
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-spectre: Disable tests....* gnu/packages/bioinformatics.scm (r-spectre)[arguments]: Disable tests.
Change-Id: I7978b05d0c1c2de3ada6b1b490ae36b28171f17c
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-gchain: Add missing inputs....* gnu/packages/bioinformatics.scm (r-gchain)[native-inputs]: Add
r-pwalign and r-testthat.
[arguments]: Add phase 'skip-bad-tests.
Change-Id: Ia11c6e50e0d2886762ec551df3e5d73ef98547f8
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-seraster: Add missing input....* gnu/packages/bioinformatics.scm (r-seraster)[native-inputs]: Add r-testthat.
Change-Id: I88fb4a51831aff1b08437ef08adb62e344185a07
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-gtrack: Add missing input....* gnu/packages/bioinformatics.scm (r-gtrack)[native-inputs]: Add r-testthat.
Change-Id: I7b0cad1b8fd27d88ff766c5a46bd01dae2933422
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-doubletcollection: Add missing input and disable tests....* gnu/packages/bioinformatics.scm (r-doubletcollection)[native-inputs]: Add
r-testthat.
[arguments]: Disable tests.
Change-Id: I8802f703ecfd8d69e6e457cffb28e34d3f4f2b06
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-pando: Add missing inputs and disable tests....* gnu/packages/bioinformatics.scm (r-pando)[native-inputs]: Add
r-bsgenome-hsapiens-ucsc-hg38, r-devtools, r-doparallel, and
r-ensdb-hsapiens-v86.
[arguments]: Disable tests.
Change-Id: Ic66679e2b8c4cdb9835ce08dc4dbb0a42e35e291
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-anpan: Add missing input....* gnu/packages/bioinformatics.scm (r-anpan)[native-inputs]: Add r-testthat.
Change-Id: I69be3fa82db5f9c4e1302c9a3bd2d4f5253bde13
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-hdwgcna: Add missing inputs....* gnu/packages/bioinformatics.scm (r-hdwgcna)[native-inputs]: Add r-devtools
and r-testthat.
Change-Id: I553d4fc2f1a682e5d552862c5e50a31140528073
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-ewastools: Add missing inputs....* gnu/packages/bioinformatics.scm (r-ewastools)[native-inputs]: Add r-enmix,
r-illuminahumanmethylationepicanno-ilm10b4-hg19, r-minfi, r-stringi, and
r-testthat.
Change-Id: I8ba2b1c46a4898b27874a7dc8648bb142f4b5a70
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-bamutils: Add test inputs and disable tests....* gnu/packages/bioinformatics.scm (r-bamutils)[arguments]: Disable tests.
[native-inputs]: Add r-testthat and samtools.
Change-Id: I781c38fb59355a51f2cd27a833d7ed5dbe5277ab
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-bamutils: Update to 0.0.0.9000-2.0a7d2d9....* gnu/packages/bioinformatics.scm (r-bamutils): Update to
0.0.0.9000-2.0a7d2d9.
Change-Id: I04e86c2ff1059f23a34615ac6067926cdd9cb355
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-dropbead: Disable tests....* gnu/packages/bioinformatics.scm (r-dropbead)[native-inputs]: Add
r-data-table.
[arguments]: Disable tests.
Change-Id: I48c74a7b4253695ab5c877f6f1cebdca6ed42cb7
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-sleuth: Disable tests....* gnu/packages/bioinformatics.scm (r-sleuth)[native-inputs]: Add r-testthat.
[arguments]: Disable tests.
Change-Id: Ib060eb18f8964212eb38b7025a35c16f0aca97b9
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-ggsankey: Add missing inputs....* gnu/packages/bioinformatics.scm (r-ggsankey)[native-inputs]: Add r-testthat.
Change-Id: Iaafb75cc47e89a4a25232003d410f98c304ff021
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-streamgraph: Add missing input....* gnu/packages/bioinformatics.scm (r-streamgraph)[native-inputs]: Add
r-testthat.
Change-Id: I1209a467c5a966c916f0d0416c6c1e283ae9226d
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-signac: Add missing input....* gnu/packages/bioinformatics.scm (r-signac)[native-inputs]: Add r-testthat.
Change-Id: I0aacabf77171903cca2bc0f443f77e479b6331b2
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-psupertime: Add missing input....* gnu/packages/bioinformatics.scm (r-psupertime)[native-inputs]: Add
r-testthat.
Change-Id: I9993547e2e757b4218c2229495a7eaa0c8fecbe2
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-demuxmix: Add missing input....* gnu/packages/bioinformatics.scm (r-demuxmix)[native-inputs]: Add r-testthat.
Change-Id: Ia09b929b4d5bb521d58fb74f17f1ac91a4d44a60
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-cmdstanr: Add missing input....* gnu/packages/bioinformatics.scm (r-cmdstanr)[native-inputs]: Add
r-testthat.
Change-Id: Idd81b903e9e9a8308703c9ee8dc5583a04854678
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-gutils: Add missing input....* gnu/packages/bioinformatics.scm (r-gutils)[native-inputs]: Add r-testthat.
Change-Id: I1b5e34441b48bc92bff6538378d2e2bbc7111631
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-rnacrosslinkoo: Add missing inputs....* gnu/packages/bioinformatics.scm (r-rnacrosslinkoo)[native-inputs]: Add
r-testthat.
Change-Id: Iedd2dee7a32dcd19a99d25d92b6f453dd197f5b4
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-bedtorch: Disable tests....* gnu/packages/bioinformatics.scm (r-bedtorch)[arguments]: Disable tests.
[native-inputs]: Add r-testthat.
Change-Id: Ia06aca330528eb2b9eea569d5d12db0f12d6511e
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-presto: Add missing inputs....* gnu/packages/bioconductor.scm (r-presto)[native-inputs]: Add r-testthat.
Change-Id: I3fe5ec83478e384fe34701b0672b6f216255b1d6
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-psiplot: Add missing inputs....* gnu/packages/bioinformatics.scm (r-psiplot)[native-inputs]: Add r-testthat.
Change-Id: I19ad7216f86968c87abad64313bf09d03e3ad612
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-omnipathr/devel: Add missing inputs....* gnu/packages/bioinformatics.scm (r-omnipathr/devel)[native-inputs]: Add
r-testthat.
Change-Id: I7e339871d65ed0ff263db14ff9fb0aa1bb3ed0bb
| Ricardo Wurmus |
| 2024-12-03 | gnu: r-millefy: Add missing inputs....* gnu/packages/bioinformatics.scm (r-millefy)[native-inputs]: Add r-testthat.
Change-Id: Id5d1f74074f05f1af2e3726e9a9e49f2d63f13c9
| Ricardo Wurmus |
