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* gnu: Remove python-louvain-0.7.Maxim Cournoyer2023-01-27
| | | | * gnu/packages/graph.scm (python-louvain-0.7): Delete variable.
* gnu: python-leidenalg: Update to 0.9.1.Maxim Cournoyer2023-01-27
| | | | * gnu/packages/graph.scm (python-leidenalg): Update to 0.9.1.
* gnu: python-igraph: Update to 0.10.4-0.b6ebd8e.Maxim Cournoyer2023-01-27
| | | | | | * gnu/packages/graph.scm (python-igraph): Update to 0.10.4-0.b6ebd8e. [build-system]: Use pyproject-build-system. [phases]: Delete check phase override.
* gnu: rw: Update to 0.9 and apply a patch to build with igraph >= 0.10.Maxim Cournoyer2023-01-27
| | | | | | * gnu/packages/patches/rw-igraph-0.10.patch: New file. * gnu/local.mk: Register it. * gnu/packages/graph.scm (rw): Update to 0.9. Apply patch.
* gnu: igraph: Update to 0.10.4.Maxim Cournoyer2023-01-27
| | | | | | | | | * gnu/packages/graph.scm (igraph): Update to 0.10.4. [source]: Modify to preserve the bundled cs and pcg libraries, which cannot be used from the system. [arguments]: Use gexps, and provide the #:test-target argument. [inputs]: Delete suitesparse. [propagated-inputs]: New field.
* gnu: Use old setuptools in packages that relies on use_2to3 conversion.Marius Bakke2023-01-07
| | | | | | | | | | | | | | This fixes a regression since 520cdf80581669646ff61e9f18f3b27045556e76 where the use_2to3 functionality was removed from setuptools. * gnu/packages/graph.scm (python-louvain)[native-inputs]: Change from PYTHON-SETUPTOOLS to PYTHON-SETUPTOOLS-57. * gnu/packages/python-check.scm (python-parameterizedtestcase)[native-inputs]: Likewise. * gnu/packages/python-xyz.scm (python-anyjson)[native-inputs]: Add PYTHON-SETUPTOOLS-57. * gnu/packages/bioinformatics.scm (python-pyvcf)[native-inputs]: Change from PYTHON-SETUPTOOLS-FOR-TENSORFLOW to PYTHON-SETUPTOOLS-57.
* gnu: plfit: Update to 0.9.4.Tobias Geerinckx-Rice2022-12-11
| | | | * gnu/packages/graph.scm (plfit): Update to 0.9.4.
* gnu: python-louvain: Fix test.Greg Hogan2022-10-02
| | | | | | | | * gnu/packages/graph.scm (python-louvain)[source]: Add patch. * gnu/packages/patches/python-louvain-fix-test.patch: New file. * gnu/local.mk (dist_patch_DATA): Register patch. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: edge-addition-planarity-suite: Update to 3.0.2.0.vicvbcun2022-08-12
| | | | | | * gnu/packages/graph.scm (edge-addition-planarity-suite): Update to 3.0.2.0. Signed-off-by: Andreas Enge <andreas@enge.fr>
* gnu: python-graph-tool: Update to 2.45.Ale Abdo2022-07-08
| | | | | | * gnu/packages/graph.scm (python-graph-tool): Update to 2.45. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: python-faiss: Fix build on Python 3.9.Marius Bakke2022-06-21
| | | | | * gnu/packages/graph.scm (python-faiss)[arguments]: Remove "m" suffix to Python library path.
* gnu: python-igraph: Update to 0.9.11.Tobias Geerinckx-Rice2022-06-05
| | | | * gnu/packages/graph.scm (python-igraph): Update to 0.9.11.
* gnu: python-leidenalg: Update to 0.8.10.Ricardo Wurmus2022-05-30
| | | | | | * gnu/packages/graph.scm (python-leidenalg): Update to 0.8.10. [arguments]: Patch setup.py. [native-inputs]: Remove python-setuptools; add python-setuptools-scm.
* gnu: python-plotly: Update to 5.6.0.kiasoc52022-05-23
| | | | | | * gnu/packages/graph.scm (python-plotly): Update to 5.6.0. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: python-igraph: Update to 0.9.10.Efraim Flashner2022-04-14
| | | | * gnu/packages/graph.scm (python-igraph): Update to 0.9.10.
* gnu: igraph: Update to 0.9.8.Efraim Flashner2022-04-14
| | | | * gnu/packages/graph.scm (igraph): Update to 0.9.8.
* gnu: python-louvain-0.6: Update to 0.7.1.Ricardo Wurmus2022-01-31
| | | | | | | | | | * gnu/packages/graph.scm (python-louvain-0.6): Update to 0.7.1. [arguments]: Add build phases 'find-igraph and 'pretend-version. [native-inputs]: Add python-setuptools-scm and python-wheel. Rename this variable... (python-louvain-0.7): ...to this, naturally. * gnu/packages/bioinformatics.scm (python-scanpy)[propagated-inputs]: Update reference to python-louvain-0.6.
* gnu: python-louvain: Update to 0.16.Ricardo Wurmus2022-01-31
| | | | * gnu/packages/graph.scm (python-louvain): Update to 0.16.
* gnu: python-louvain: Build with older setuptools.Marius Bakke2022-01-22
| | | | | * gnu/packages/graph.scm (python-louvain)[native-inputs]: Add PYTHON-SETUPTOOLS.
* gnu: python-igraph: Do not inherit igraph replacements.Marius Bakke2022-01-18
| | | | | | | ...because igraph is built from different source code. * gnu/packages/graph.scm (python-igraph): Use object inheritance instead of PACKAGE/INHERIT.
* gnu: python-leidenalg: Fix build failure.Marius Bakke2022-01-18
| | | | | * gnu/packages/graph.scm (python-leidenalg)[arguments]: Add #:phases. [native-inputs]: Add PYTHON-SETUPTOOLS.
* gnu: igraph: Update to 0.9.9.Maxim Cournoyer2022-01-18
| | | | * gnu/packages/graph.scm (igraph): Update to 0.9.9.
* gnu: igraph: Update to 0.9.6.Maxim Cournoyer2022-01-18
| | | | | | * gnu/packages/graph.scm (igraph): Update to 0.9.6. [snippet]: Simplify source snippet a bit, leveraging the new support for using an external plfit library.
* gnu: python-plotly: Remove obsolete phase.Sarah Morgensen2022-01-10
| | | | | | | * gnu/packages/graph.scm (python-plotly)[arguments]<#:phases>: Remove 'make-files-writable phase. Signed-off-by: Maxim Cournoyer <maxim.cournoyer@gmail.com>
* gnu: python-igraph: Update to 0.9.8.Maxim Cournoyer2022-01-10
| | | | | | | | | | | * gnu/packages/graph.scm (python-igraph): Update to 0.9.8. [origin]: Fetch from git. [configure-flags]: Delete argument. [phases]{build}: No longer override phase. {check}: Preserve ordering and streamline. {specify-libigraph-location}: New phase. [native-inputs]: Remove pkg-config. [home-page]: Update.
* gnu: igraph: Update to 0.9.5.Maxim Cournoyer2022-01-10
| | | | | | | | | | * gnu/packages/graph.scm (igraph): Update to 0.9.5. [source]: Add snippet to fully unbundle. [build-system]: Use cmake-build-system. [configure-flags]: Replace all by just '-DBUILD_SHARED_LIBS=ON'. [native-inputs]: Add pkg-config. [inputs]{zlib}: Delete input. {arpack-ng, plfit, suitesparse}: New inputs.
* gnu: Add plfit.Maxim Cournoyer2022-01-10
| | | | * gnu/packages/graph.scm (plfit): New variable.
* gnu: python-plotly: Fix trailing whitespace in description.Vagrant Cascadian2021-12-29
| | | | | * gnu/packages/graph.scm (python-plotly)[description]: Fix trailing whitespace.
* gnu: python-graph-tool: Remove input labels.Marius Bakke2021-12-17
| | | | | | * gnu/packages/graph.scm (python-graph-tool)[arguments]: Import SITE-PACKAGES from (guix build python-build-system), and use instead of homegrown procedure. [native-inputs, inputs]: Remove labels.
* gnu: python-graph-tool: Build with Cairomm 1.14.Marius Bakke2021-12-17
| | | | | * gnu/packages/graph.scm (python-graph-tool)[inputs]: Change from CAIROMM to CAIROMM-1.14.
* gnu: Remove unneeded uses of custom GCC versions.Marius Bakke2021-12-17
| | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/bioinformatics.scm (libmaus2, biobambam2)[native-inputs]: Remove GCC-10. * gnu/packages/game-development.scm (libresprite, python-pyxel)[native-inputs]: Likewise. * gnu/packages/lua.scm (emilua)[native-inputs]: Likewise. * gnu/packages/radio.scm (sdr++)[native-inputs]: Likewise. * gnu/packages/wm.scm (fnott)[native-inputs]: Likewise. * gnu/packages/text-editors.scm (kakoune)[native-inputs]: Likewise. (scintilla)[native-inputs]: Remove GCC-9. * gnu/packages/build-tools.scm (bear)[native-inputs]: Likewise. * gnu/packages/cpp.scm (magic-enum)[native-inputs]: Likewise. * gnu/packages/games.scm (openttd)[native-inputs]: Likewise. (schiffbruch)[native-inputs]: Remove GCC-11. * gnu/packages/music.scm (liquidsfz, geonkick)[native-inputs]: Remove GCC-9. * gnu/packages/fcitx5.scm (fcitx5, libime, fcitx5-configtool)[native-inputs]: Likewise. * gnu/packages/wine.scm (dxvk32)[native-inputs]: Likewise. * gnu/packages/ftp.scm (libfilezilla)[native-inputs]: Remove GCC-8. * gnu/packages/image.scm (blurhash)[native-inputs]: Likewise. * gnu/packages/jami.scm (libring)[native-inputs]: Likewise. * gnu/packages/pdf.scm (xournalpp)[native-inputs]: Likewise. * gnu/packages/telegram.scm (webrtc-for-telegram-desktop, telegram-desktop)[native-inputs]: Likewise.
* gnu: Simplify package inputs.Ludovic Courtès2021-12-13
| | | | | | | | This commit was obtained by running: ./pre-inst-env guix style without any additional argument.
* gnu: python-graph-tool: Sort inputs alphabetically.Efraim Flashner2021-07-20
| | | | | | | * gnu/packages/graph.scm (python-graph-tool)[native-inputs]: Sort alphabetically. [inputs]: Same. [propagated-inputs]: Same.
* gnu: python-graph-tool: Update to 2.43.Alexandre Hannud Abdo2021-07-20
| | | | | | * gnu/packages/graph.scm (python-graph-tool): Update to 2.43. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
* gnu: python2-plotly: Remove package.zimoun2021-06-29
| | | | | | * gnu/packages/graph.scm (python2-plotly): Remove variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add python-graph-tool.Alexandre Hannud Abdo2021-05-15
| | | | | | * gnu/packages/graph.scm (python-graph-tool): New variable. Signed-off-by: Marius Bakke <marius@gnu.org>
* gnu: Add python-louvain 0.15.Vinicius Monego2021-04-25
| | | | | | | | | | * gnu/packages/graph.scm (python-louvain): Rename variable to python-louvain-0.6. (python-louvain): New variable. * gnu/packages/bioinformatics.scm (python-scanpy)[propagated-inputs]: Use python-louvain-0.6. Co-authored-by: Leo Famulari <leo@famulari.name>
* gnu: python-plotly: Allow test phase to be skipped.Efraim Flashner2021-03-04
| | | | | * gnu/packages/graph.scm (python-plotly)[arguments]: Wrap custom 'check phase tests with test with tests? keyword.
* gnu: python-plotly: Update to 4.14.3.Efraim Flashner2021-03-04
| | | | | | | * gnu/packages/graph.scm (python-plotly): Update to 4.14.3. [propagated-inputs]: Remove python-decorator. Add python-ipython, python-pillow. Move python-ipywidgets, python-xarray ... [native-inputs]: ... to here.
* gnu: igraph: Omit static library.Tobias Geerinckx-Rice2020-11-26
| | | | | * gnu/packages/graph.scm (igraph)[arguments]: Add "--disable-static" to #:configure-flags.
* gnu: igraph: Update to 0.8.4.Tobias Geerinckx-Rice2020-11-26
| | | | * gnu/packages/graph.scm (igraph): Update to 0.8.4.
* gnu: r-rgraphviz: Move to (gnu packages bioconductor).zimoun2020-09-14
| | | | | | | * gnu/packages/graph.scm (r-rgraphviz): Move from here... * gnu/packages/bioconductor.scm (r-rgraphviz): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
* gnu: r-rgraphviz: Build reproducibly.Ricardo Wurmus2020-09-14
| | | | | | | Fixes <https://bugs.gnu.org/43398>. * gnu/packages/graph.scm (r-rgraphviz)[arguments]: Add phase "make-reproducible".
* gnu: r-igraph: Move to (gnu packages cran).zimoun2020-09-11
| | | | | | | * gnu/packages/graph.scm (r-igraph): Move from here... * gnu/packages/cran.scm (r-igraph): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
* gnu: r-diffusionmap: Move to (gnu packages cran).zimoun2020-09-11
| | | | | | | * gnu/packages/graph.scm (r-diffusionmap): Move from here... * gnu/packages/cran.scm (r-diffusionmap): ...to here. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
* gnu: python-igraph: Update to 0.8.2.Tobias Geerinckx-Rice2020-08-18
| | | | * gnu/packages/graph.scm (python-igraph): Update to 0.8.2.
* gnu: igraph: Update to 0.8.2.Tobias Geerinckx-Rice2020-08-18
| | | | * gnu/packages/graph.scm (igraph): Update to 0.8.2.
* gnu: Use HTTPS for igraph.org.Tobias Geerinckx-Rice2020-07-16
| | | | * gnu/packages/graph.scm (igraph, r-igraph)[home-page]: Use HTTPS.
* gnu: Remove ".git" from "https://github/…/….git".Ludovic Courtès2020-07-12
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Until now, 'lookup-origin' and thus 'lookup-origin-revision' in (guix swh) would sometimes return #f for these because the ".git" URLs are redirects to the non-".git" URLs. Consequently, 'guix lint -c archival' would keep saying "scheduled Software Heritage archival"; likewise, the fallback download code would fail. * gnu/packages/ada.scm, gnu/packages/admin.scm, gnu/packages/aidc.scm, gnu/packages/algebra.scm, gnu/packages/android.scm, gnu/packages/animation.scm, gnu/packages/arcan.scm, gnu/packages/assembly.scm, gnu/packages/audio.scm, gnu/packages/authentication.scm, gnu/packages/avr.scm, gnu/packages/axoloti.scm, gnu/packages/backup.scm, gnu/packages/bash.scm, gnu/packages/benchmark.scm, gnu/packages/bioconductor.scm, gnu/packages/bioinformatics.scm, gnu/packages/bittorrent.scm, gnu/packages/boost.scm, gnu/packages/build-tools.scm, gnu/packages/c.scm, gnu/packages/calendar.scm, gnu/packages/cdrom.scm, gnu/packages/check.scm, gnu/packages/chemistry.scm, gnu/packages/chez.scm, gnu/packages/clojure.scm, gnu/packages/code.scm, gnu/packages/compression.scm, gnu/packages/compton.scm, gnu/packages/coq.scm, gnu/packages/cpp.scm, gnu/packages/cran.scm, gnu/packages/crypto.scm, gnu/packages/curl.scm, gnu/packages/databases.scm, gnu/packages/datastructures.scm, gnu/packages/debug.scm, gnu/packages/disk.scm, gnu/packages/distributed.scm, gnu/packages/django.scm, gnu/packages/dlang.scm, gnu/packages/dns.scm, gnu/packages/docker.scm, gnu/packages/education.scm, gnu/packages/efi.scm, gnu/packages/elixir.scm, gnu/packages/emacs-xyz.scm, gnu/packages/embedded.scm, gnu/packages/emulators.scm, gnu/packages/engineering.scm, gnu/packages/erlang.scm, gnu/packages/fabric-management.scm, gnu/packages/file-systems.scm, gnu/packages/finance.scm, gnu/packages/firmware.scm, gnu/packages/flashing-tools.scm, gnu/packages/fonts.scm, gnu/packages/fontutils.scm, gnu/packages/fpga.scm, gnu/packages/game-development.scm, gnu/packages/games.scm, gnu/packages/genealogy.scm, gnu/packages/genimage.scm, gnu/packages/geo.scm, gnu/packages/gimp.scm, gnu/packages/gl.scm, gnu/packages/gnome-xyz.scm, gnu/packages/gnome.scm, gnu/packages/gnuzilla.scm, gnu/packages/golang.scm, gnu/packages/gpodder.scm, gnu/packages/graph.scm, gnu/packages/graphics.scm, gnu/packages/graphviz.scm, gnu/packages/groff.scm, gnu/packages/groovy.scm, gnu/packages/gtk.scm, gnu/packages/guile-xyz.scm, gnu/packages/guile.scm, gnu/packages/hardware.scm, gnu/packages/haskell-apps.scm, gnu/packages/haskell-xyz.scm, gnu/packages/hexedit.scm, gnu/packages/i2p.scm, gnu/packages/ibus.scm, gnu/packages/image-processing.scm, gnu/packages/image-viewers.scm, gnu/packages/image.scm, gnu/packages/ipfs.scm, gnu/packages/java-graphics.scm, gnu/packages/java-maths.scm, gnu/packages/java.scm, gnu/packages/javascript.scm, gnu/packages/jrnl.scm, gnu/packages/julia.scm, gnu/packages/jupyter.scm, gnu/packages/kodi.scm, gnu/packages/language.scm, gnu/packages/lego.scm, gnu/packages/less.scm, gnu/packages/libusb.scm, gnu/packages/linux.scm, gnu/packages/lirc.scm, gnu/packages/lisp-xyz.scm, gnu/packages/llvm.scm, gnu/packages/logging.scm, gnu/packages/lolcode.scm, gnu/packages/lua.scm, gnu/packages/lxde.scm, gnu/packages/lxqt.scm, gnu/packages/machine-learning.scm, gnu/packages/mail.scm, gnu/packages/markup.scm, gnu/packages/maths.scm, gnu/packages/maven.scm, gnu/packages/mes.scm, gnu/packages/messaging.scm, gnu/packages/monitoring.scm, gnu/packages/mpd.scm, gnu/packages/music.scm, gnu/packages/networking.scm, gnu/packages/node-xyz.scm, gnu/packages/ocaml.scm, gnu/packages/ocr.scm, gnu/packages/onc-rpc.scm, gnu/packages/opencl.scm, gnu/packages/opencog.scm, gnu/packages/pantheon.scm, gnu/packages/password-utils.scm, gnu/packages/patchutils.scm, gnu/packages/pdf.scm, gnu/packages/perl6.scm, gnu/packages/phabricator.scm, gnu/packages/popt.scm, gnu/packages/printers.scm, gnu/packages/prolog.scm, gnu/packages/protobuf.scm, gnu/packages/pulseaudio.scm, gnu/packages/python-crypto.scm, gnu/packages/python-web.scm, gnu/packages/python-xyz.scm, gnu/packages/qt.scm, gnu/packages/radio.scm, gnu/packages/rails.scm, gnu/packages/rdf.scm, gnu/packages/rednotebook.scm, gnu/packages/rpc.scm, gnu/packages/rsync.scm, gnu/packages/ruby.scm, gnu/packages/rust.scm, gnu/packages/scheme.scm, gnu/packages/screen.scm, gnu/packages/security-token.scm, gnu/packages/selinux.scm, gnu/packages/serialization.scm, gnu/packages/shells.scm, gnu/packages/shellutils.scm, gnu/packages/simh.scm, gnu/packages/sml.scm, gnu/packages/ssh.scm, gnu/packages/statistics.scm, gnu/packages/stenography.scm, gnu/packages/sync.scm, gnu/packages/syncthing.scm, gnu/packages/synergy.scm, gnu/packages/telephony.scm, gnu/packages/terminals.scm, gnu/packages/tex.scm, gnu/packages/texinfo.scm, gnu/packages/text-editors.scm, gnu/packages/textutils.scm, gnu/packages/time.scm, gnu/packages/tmux.scm, gnu/packages/tor.scm, gnu/packages/toys.scm, gnu/packages/version-control.scm, gnu/packages/video.scm, gnu/packages/vim.scm, gnu/packages/virtualization.scm, gnu/packages/vlang.scm, gnu/packages/vnc.scm, gnu/packages/vpn.scm, gnu/packages/web-browsers.scm, gnu/packages/web.scm, gnu/packages/wireservice.scm, gnu/packages/wm.scm, gnu/packages/wxwidgets.scm, gnu/packages/xdisorg.scm, gnu/packages/xml.scm, gnu/packages/xorg.scm, tests/lint.scm: Remove trailing ".git" from 'git-reference' URL.
* gnu: python-plotly: Update to 4.8.1.Pierre Langlois2020-06-22
| | | | | | | | | | | | | | | | But keep version 2.4.1 around for packages that still need it and for python2 support. * gnu/packages/graph.scm (python-plotly): Update to 4.8.1. [source]: Use git-fetch so that tests are also included. [arguments]: Enable tests. [home-page]: Follow redirect. (python-plotly-2.4.1): New variable. (python2-plotly): Inherit from python-plotly-2.4.1. * gnu/packages/bioinformatics.scm (python-deeptools)[native-inputs]: Depend on python-plotly-2.4.1. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
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