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2020-10-08gnu: gmsh: Update to 4.6.0.zimoun
Gmsh bundles METIS 5 released with Apache License 2.0 since upstream commit eaff7f6477fe876991615cfa4b5832bd5f12994b. Instead, Gmsh is linked with the package 'metis'. * gnu/packages/maths.scm (gmsh): Update to 4.6.0. (propagated-inputs): Replace 'opencascade-oce' by 'opencascade-occt', add 'metis'. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2020-10-01gnu: SuiteSparse: Update to 5.8.1.Greg Hogan
From 0d8692dfebc6ac4b515c06612ab8da4c898719eb Mon Sep 17 00:00:00 2001 From: Greg Hogan <code@greghogan.com> Date: Tue, 29 Sep 2020 11:54:38 +0000 Subject: [PATCH] gnu: SuiteSparse: Update to 5.8.1. * gnu/packages/maths.scm (suitesparse): Update to 5.8.1. [arguments]: Remove unnecessary flag and use default blas and lapack. [inputs]: Add new dependencies for SLIP_LU component. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2020-09-30gnu: Fix package references.Efraim Flashner
* gnu/packages/algebra.scm (iml)[inputs]: Correctly refer to package inputs. * gnu/packages/astronomy.scm (xplanet), * gnu/packages/audio.scm (redkite, libaudec, lv2lint, lv2toweb), * gnu/packages/bioconductor.scm (r-cummerbund), * gnu/packages/chicken.scm (chicken), * gnu/packages/conky.scm (conky), * gnu/packages/cran.scm (r-latex2exp), * gnu/packages/crates-io.scm (rust-rgb), * gnu/packages/databases.scm (mariadb), * gnu/packages/diffoscope.scm (reprotest), * gnu/packages/file-systems.scm (glusterfs), * gnu/packages/finance.scm (electron-cash), * gnu/packages/games.scm (rinutils, ksudoku, kdiamond, kigo), * gnu/packages/geo.scm (grass), * gnu/packages/gnome.scm (libmediaart, gnome-contacts, geoclue), * gnu/packages/gnucash.scm (aqbanking), * gnu/packages/image.scm (mtpaint), * gnu/packages/kde-internet.scm (kopete, ktorrent), * gnu/packages/kde-utils.scm (kmousetool, kmouth, kronometer), * gnu/packages/linphone.scm (liblinphone), * gnu/packages/maths.scm (ppl), * gnu/packages/mercury.scm (mercury-minimal), * gnu/packages/music.scm (bjumblr, bschaffl, lsp-plugins, spectacle-analyzer, helm, tap-lv2, wolf-shaper, shiru-lv2), * gnu/packages/networking.scm (restinio), * gnu/packages/prolog.scm (swi-prolog), * gnu/packages/python-web.scm (gunicorn), * gnu/packages/python-xyz.scm (python-docusign-esign), * gnu/packages/ruby.scm (ruby-cucumber, ruby_version, ruby-addressable), * gnu/packages/sagemath.scm (python-cypari2), * gnu/packages/skarnet.scm (s6-linux-init), * gnu/packages/vpn.scm (sshuttle), * gnu/packages/web.scm (libcyaml), * gnu/packages/xdisorg.scm (kbdd), * gnu/packages/xorg.scm (xpra): Same.
2020-09-18Revert "gnu: openblas: Update to 0.3.10."Mathieu Othacehe
This reverts commit c59e9f0a03241ef3c7b8042054fd54e327f7539a because it triggers too many rebuilds.
2020-09-18gnu: openblas: Update to 0.3.10.Greg Hogan
* gnu/packages/maths.scm (openblas): Update to 0.3.10. [source]: Fetch from github. Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
2020-09-17gnu: hdf5: Update to 1.10.7.Eric Bavier
Fixes CVE-2018-13870, CVE-2018-13869 and CVE-2018-17435. * gnu/packages/maths.scm (hdf5-1.10): Update to 1.10.7.
2020-09-08gnu: metamath: Update to 0.192.B. Wilson
* gnu/packages/maths.scm (metamath): Update to 0.192. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2020-08-27gnu: Add libflame.Efraim Flashner
* gnu/packages/maths.scm (libflame): New variable.
2020-08-27gnu: lrslib: Update to 7.1.Andreas Enge
* gnu/packages/maths.scm (lrslib): Update to 7.1.
2020-08-26gnu: octave: Remove unneeded 'source' field.Ludovic Courtès
* gnu/packages/maths.scm (octave)[source]: Remove. It had been unnecessary since b66741edc954f0a17f1ef567e8d612cac87c7b6a.
2020-08-26gnu: netcdf-parallel-openmpi: Allow MPI tests to pass.Ludovic Courtès
* gnu/packages/maths.scm (netcdf-parallel-openmpi)[arguments]: Add 'mip-setup' phase.
2020-08-26gnu: hdf5-parallel-openmpi: Update to 1.10.6.Ludovic Courtès
* gnu/packages/maths.scm (hdf5-parallel-openmpi): Inherit from HDF5-1.10.
2020-08-26gnu: hdf5: Use 'package/inherit' for variants.Ludovic Courtès
* gnu/packages/maths.scm (hdf5-1.10, hdf5-parallel-openmpi): Use 'package/inherit'.
2020-08-26gnu: hdf5: Distinguish the default hdf5 version.Ludovic Courtès
* gnu/packages/maths.scm (hdf5): Rename to... (hdf-1.8): ... this. (hdf5-1.10): Adjust accordingly. (hdf5): New variable.
2020-08-16gnu: wxmaxima: Update to 20.06.6.Kei Kebreau
* gnu/packages/maths.scm (wxmaxima): Update to 20.06.6. [arguments]: Add 'patch-doc-path phase.
2020-08-16gnu: Add veusz.Vinicius Monego
* gnu/packages/maths.scm (veusz): New variable. Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
2020-08-10gnu: Add clapack.Ricardo Wurmus
* gnu/packages/maths.scm (clapack): New variable.
2020-08-04gnu: mcrl2: Update to 202006.0.Jan (janneke) Nieuwenhuizen
* gnu/packages/maths.scm (mcrl2): Update to 202006.0.
2020-07-23gnu: Add sleef.Vinicius Monego
* gnu/packages/maths.scm (sleef): New variable. Signed-off-by: Brett Gilio <brettg@gnu.org>
2020-07-17gnu: java-junit: Install from pom file.Julien Lepiller
* gnu/packages/java.scm (java-junit)[arguments]: Replace install phase. (java-hamcrest-core)[arguments]: Replace install phase. (java-hamcrest-library)[arguments]: Replace install phase. (java-cisd-jhdf5, java-commons-math3, java-commons-collections4) (java-commons-io, java-commons-exec-1.1, java-commons-exec) (java-commons-lang3, java-commons-codec, java-native-access) (java-native-access-platform, java-hamcrest-all): Change junit and hamcrest jar location accordingly. (java-hamcrest-all): Use old install phase of java-hamcrest-core. * gnu/packages/maths.scm (java-hdf): Change junit and hamcrest jar location accordingly.
2020-07-12gnu: Remove ".git" from "https://github/…/….git".Ludovic Courtès
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.
2020-07-11gnu: ruby-asciimath: Update to 2.0.1.Maxim Cournoyer
* gnu/packages/maths.scm (ruby-asciimath): Update to 2.0.1. [arguments]: Remove. [native-inputs]: Remove bundler, add ruby-nokogiri.
2020-07-09gnu: qalculate-gtk: Fix typo in description.Tobias Geerinckx-Rice
* gnu/packages/maths.scm (qalculate-gtk)[description]: Fix typo.
2020-07-07gnu: metamath: Update to 0.183.B. Wilson
* gnu/packages/maths.scm (metamath): Update to 0.183. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2020-07-01gnu: Add metamath.B. Wilson
* gnu/packages/maths.scm (metamath): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2020-06-30gnu: maxima: Update to 5.44.0.Kei Kebreau
* gnu/packages/maths.scm (maxima): Update to 5.44.0.
2020-06-23gnu: xaos: Add a source file-name.Efraim Flashner
* gnu/packages/maths.scm (xaos)[source]: Add file-name field.
2020-06-10gnu: ipopt: Fix source URI.Nicolas Goaziou
* gnu/packages/maths.scm (ipopt)[source]: Fix URI.
2020-06-10gnu: ipopt: Use HTTPS home page URI.Nicolas Goaziou
* gnu/packages/maths.scm (ipopt)[home-page]: Use HTTPS URI.
2020-05-29gnu: xaos: Update to 4.0.Kei Kebreau
* gnu/packages/maths.scm (xaos): Update to 4.0. [source]: Use git-fetch. [native-inputs]: Add qtbase and qttools. [arguments]: Remove #:make-flags options; replace 'configure' phase; add 'make-qt-deterministic' and 'install-data' phases. [home-page]: Update URL.
2020-05-29gnu: clp: Update to 1.17.6.Tobias Geerinckx-Rice
* gnu/packages/maths.scm (clp): Update to 1.17.6.
2020-05-27gnu: hdf4: Provide an absolute reference to libjpeg.Marius Bakke
* gnu/packages/maths.scm (hdf4)[arguments]: Add phase 'provide-absolute-libjpeg-reference'.
2020-05-27gnu: nauty: Update to 2.7r1.Nicolas Goaziou
* gnu/packages/maths.scm (nauty): Update to 2.7r1. [arguments]: Prevent using "-march-native". Install new executable.
2020-05-25gnu: wxmaxima: Update to 20.04.0.Kei Kebreau
* gnu/packages/maths.scm (wxmaxima): Update to 20.04.0.
2020-05-25gnu: qhull: Update to 2019.1Ekaitz Zarraga
* gnu/packages/maths.scm (qhull): update to 2019.1 Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2020-05-17gnu: gsl: Disable failing tests on powerpc.Efraim Flashner
* gnu/packages/maths.scm (gsl)[arguments]: Skip the same set of tests on powerpc as skipped on aarch64.
2020-05-16gnu: z3: Update to 4.8.8.Tobias Geerinckx-Rice
* gnu/packages/maths.scm (z3): Update to 4.8.8.
2020-05-13mailmap: Update entries for Nikita.nikita
* .mailmap: change email and name for Nikita. * Makefile.am, doc/guix.texi, etc/completion/fish/guix.fish, gnu/packages/accessibility.scm, gnu/packages/admin.scm, gnu/packages/audio.scm, gnu/packages/autotools.scm, gnu/packages/cdrom.scm, gnu/packages/check.scm, gnu/packages/cinnamon.scm, gnu/packages/compression.scm, gnu/packages/crypto.scm, gnu/packages/databases.scm, gnu/packages/django.scm, gnu/packages/dns.scm, gnu/packages/elixir.scm, gnu/packages/emacs-xyz.scm, gnu/packages/emacs.scm, gnu/packages/enlightenment.scm, gnu/packages/erlang.scm, gnu/packages/fonts.scm, gnu/packages/fontutils.scm, gnu/packages/forth.scm, gnu/packages/fvwm.scm, gnu/packages/games.scm, gnu/packages/gl.scm, gnu/packages/gnome.scm, gnu/packages/gnunet.scm, gnu/packages/gnupg.scm, gnu/packages/gtk.scm, gnu/packages/guile-wm.scm, gnu/packages/guile-xyz.scm, gnu/packages/haskell-apps.scm, gnu/packages/haskell-check.scm, gnu/packages/haskell-crypto.scm, gnu/packages/haskell-xyz.scm, gnu/packages/haskell.scm, gnu/packages/image-viewers.scm, gnu/packages/image.scm, gnu/packages/irc.scm, gnu/packages/language.scm, gnu/packages/libcanberra.scm, gnu/packages/linux.scm, gnu/packages/lisp-xyz.scm, gnu/packages/lisp.scm, gnu/packages/lolcode.scm, gnu/packages/lxde.scm, gnu/packages/lxqt.scm, gnu/packages/mail.scm, gnu/packages/markup.scm, gnu/packages/mate.scm, gnu/packages/maths.scm, gnu/packages/mc.scm, gnu/packages/messaging.scm, gnu/packages/music.scm, gnu/packages/ncurses.scm, gnu/packages/networking.scm, gnu/packages/nickle.scm, gnu/packages/openbox.scm, gnu/packages/pdf.scm, gnu/packages/perl-check.scm, gnu/packages/perl.scm, gnu/packages/python-compression.scm, gnu/packages/python-crypto.scm, gnu/packages/python-web.scm, gnu/packages/python-xyz.scm, gnu/packages/python.scm, gnu/packages/qt.scm, gnu/packages/ruby.scm, gnu/packages/rust.scm, gnu/packages/scheme.scm, gnu/packages/serialization.scm, gnu/packages/shells.scm, gnu/packages/ssh.scm, gnu/packages/suckless.scm, gnu/packages/tbb.scm, gnu/packages/telephony.scm, gnu/packages/text-editors.scm, gnu/packages/textutils.scm, gnu/packages/time.scm, gnu/packages/tls.scm, gnu/packages/tor.scm, gnu/packages/version-control.scm, gnu/packages/video.scm, gnu/packages/vim.scm, gnu/packages/web.scm, gnu/packages/wm.scm, gnu/packages/xdisorg.scm, gnu/packages/xfce.scm, gnu/packages/xml.scm, gnu/packages/xorg.scm, gnu/services/certbot.scm, gnu/services/desktop.scm, gnu/services/version-control.scm, gnu/services/web.scm, guix/import/hackage.scm, guix/licenses.scm: Likewise. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2020-05-13gnu: glm: Update to 0.9.9.8.Marius Bakke
* gnu/packages/patches/glm-restore-install-target.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/maths.scm (glm): Update to 0.9.9.8. [arguments]: New field.
2020-05-10gnu: flann: Update to 1.9.1.Ludovic Courtès
* gnu/packages/maths.scm (flann): Update to 1.9.1. [source]: Use 'git-fetch'. [home-page]: Change to github.com.
2020-05-10gnu: flann: Remove "octave" output.Ludovic Courtès
Octave support currently fails to build and is not used by any other package in Guix. * gnu/packages/maths.scm (flann)[outputs]: Remove "octave" output. [inputs]: Remove OCTAVE-CLI. [arguments]: Remove 'set-octave-directory' phase.
2020-04-30Merge branch 'master' into core-updatesMarius Bakke
Conflicts: gnu/local.mk gnu/packages/backup.scm gnu/packages/emacs-xyz.scm gnu/packages/guile.scm gnu/packages/lisp.scm gnu/packages/openldap.scm gnu/packages/package-management.scm gnu/packages/web.scm gnu/packages/xorg.scm
2020-04-28gnu: Add hdf5-blosc.Ricardo Wurmus
* gnu/packages/maths.scm (hdf5-blosc): New variable.
2020-04-23Merge branch 'master' into core-updatesMarius Bakke
Conflicts: etc/news.scm gnu/local.mk gnu/packages/bootloaders.scm gnu/packages/linphone.scm gnu/packages/linux.scm gnu/packages/tls.scm gnu/system.scm
2020-04-22gnu: maths: dune-*: Update to version 2.7Felix Gruber
* gnu/packages/maths.scm (dune-*): Update to version 2.7. (dune-uggrid)[source] Download from Git, as no release tarball for version 2.7 exists. (dune-alugrid,dune-subgrid,dune-pdelab)[source] Use commit hashes as no tags for version 2.7 exist (yet?). (dune-istl)[source](patches) Add patch required to build version 2.7 without openmpi. * gnu/packages/patches/dune-istl-2.7-fix-non-mpi-tests.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2020-04-20gnu: libqalculate: Fix libcurl gnutls CA cert bundle file.R Veera Kumar
* gnu/packages/patches/libqalculate-3.8.0-libcurl-ssl-fix.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/maths.scm (libqalculate)[source]: Use it. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2020-04-14gnu: dune-localfunctions: Fix build failure.Marius Bakke
* gnu/packages/maths.scm (dune-localfunctions)[arguments]: Add phase 'hide-gfortran'.
2020-04-14gnu: dune-istl: Fix build failure.Marius Bakke
* gnu/packages/maths.scm (dune-istl)[arguments]: Add phase 'hide-gfortran'.
2020-04-13Merge branch 'master' into core-updatesMarius Bakke
2020-04-12gnu: dune-subgrid: Fix grammar of "allows to mark" to "marks".Vagrant Cascadian
* gnu/packages/maths (dune-subgrid): Fix grammar.
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