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2021-04-16Merge remote-tracking branch 'origin/master' into core-updatesEfraim Flashner
Conflicts: gnu/local.mk gnu/packages/boost.scm gnu/packages/chez.scm gnu/packages/compression.scm gnu/packages/crates-io.scm gnu/packages/docbook.scm gnu/packages/engineering.scm gnu/packages/gcc.scm gnu/packages/gl.scm gnu/packages/gtk.scm gnu/packages/nettle.scm gnu/packages/python-check.scm gnu/packages/python-xyz.scm gnu/packages/radio.scm gnu/packages/rust.scm gnu/packages/sqlite.scm guix/build-system/node.scm
2021-03-27gnu: ntl: Update to 11.4.4.Tobias Geerinckx-Rice
* gnu/packages/algebra.scm (ntl): Update to 11.4.4.
2021-03-24Merge remote-tracking branch 'origin/master' into core-updatesEfraim Flashner
2021-03-23gnu: giac: Update to 1.7.0-1.Nicolas Goaziou
* gnu/packages/algebra.scm (giac): Update to 1.7.0-1.
2021-03-17gnu: Use PACKAGE/INHERIT in more places.Mark H Weaver
* gnu/packages/algebra.scm (fftwf, fftw-openmpi), gnu/packages/audio.scm (ztoolkit-rsvg), gnu/packages/bioinformatics.scm (python2-dendropy), gnu/packages/boost.scm (boost-with-python2), gnu/packages/check.scm (python2-mock, python2-pytest-mock), gnu/packages/cups.scm (hplip-minimal), gnu/packages/freedesktop.scm (libinput-minimal), gnu/packages/gettext.scm (gnu-gettext), gnu/packages/glib.scm (python2-pygobject), gnu/packages/gnome.scm (gdl-minimal, libsoup-minimal, python2-pyatspi), gnu/packages/groff.scm (groff-minimal), gnu/packages/jami.scm (ffmpeg-jami), gnu/packages/libcanberra.scm (libcanberra/gtk+-2), gnu/packages/lirc.scm (python2-lirc), gnu/packages/llvm.scm (clang-runtime-3.5), gnu/packages/mpi.scm (java-openmpi, openmpi-thread-multiple), gnu/packages/node.scm (libnode), gnu/packages/onc-rpc.scm (libtirpc/hurd), gnu/packages/python-compression.scm (bitshuffle-for-snappy), gnu/packages/python-crypto.scm (python2-pycrypto, python2-cryptography) (python2-cryptography, python2-m2crypto), gnu/packages/python-web.scm (python2-html2text, python2-tornado) (python2-terminado, python2-ndg-httpsclient, python2-websocket-client) (python2-rauth, python2-url, python2-s3transfer), gnu/packages/python-xyz.scm (python2-psutil, python2-serpent) (python2-humanfriendly, python2-empy, python2-parse-type, python2-polib) (python2-jsonschema, python2-pystache, python2-cython, python2-numpydoc) (python2-ipyparallel, python2-traitlets, python2-dbus) (python2-beautifulsoup4, python2-pep517, python2-flake8, python2-llfuse) (python2-tlsh, python-file, python2-notebook, python-jupyter-console-minimal) (python2-contextlib2, python2-promise, python2-anyjson, python2-amqp) (python2-kombu, python2-billiard, python2-celery, python2-whoosh) (python2-jellyfish, python-rope, ptpython-2, python2-binaryornot) (python2-setproctitle, python2-argcomplete, python2-xopen, python2-isort) (python2-radon, python2-rfc6555, python2-activepapers, python2-send2trash) (python2-cloudpickle, python2-reparser), gnu/packages/python.scm (python2-called-python), gnu/packages/qt.scm (python2-sip, python-pyqt-without-qtwebkit, python2-pyqt) (python-qscintilla, python-pyqt+qscintilla), gnu/packages/scanner.scm (sane-backends), gnu/packages/sdl.scm (guile3.0-sdl2), gnu/packages/selinux.scm (checkpolicy, libselinux, libsemanage, secilc) (python-sepolgen, policycoreutils), gnu/packages/serialization.scm (lua5.1-libmpack, lua5.2-libmpack), gnu/packages/simulation.scm (fenics), gnu/packages/statistics.scm (python2-statsmodels), gnu/packages/texinfo.scm (info-reader), gnu/packages/wxwidgets.scm (wxwidgets-gtk2, wxwidgets-gtk2-3.1), gnu/packages/xml.scm (xmlsec-nss), gnu/packages/xorg.scm (uim-gtk, uim-qt), guix/build-system/python.scm (package-with-explicit-python) (strip-python2-variant): Use PACKAGE/INHERIT.
2021-03-15gnu: Add r-dtt.Lars-Dominik Braun
* gnu/packages/algebra.scm (r-dtt): New variable.
2021-03-09gnu: symengine: Fix build.Efraim Flashner
* gnu/packages/algebra.scm (symengine)[native-inputs]: Remove llvm. [arguments]: Adjust accordingly.
2021-03-06Merge branch 'master' into core-updatesChristopher Baines
2021-02-28gnu: singular: Use HTTPS home page URI.Nicolas Goaziou
* gnu/packages/algebra.scm (singular)[home-page]: Use HTTPS URI.
2021-02-28gnu: python-flint: Use HTTPS home page URI.Nicolas Goaziou
* gnu/packages/algebra.scm (python-flint)[home-page]: Use HTTPS URI.
2021-02-26gnu: cmh: Update to 1.1.0.Andreas Enge
* gnu/packages/algebra.scm (cmh): Update to 1.1.0. (fplll-4-cmh): Remove variable.
2021-02-12gnu: pari-gp: Update to 2.13.1.Andreas Enge
* gnu/packages/algebra.scm (pari-gp): Update to 2.13.1.
2021-02-03Merge branch 'master' into core-updatesChristopher Baines
2021-01-29gnu: Replace all uses of texlive-union by texlive-updmap.cfg.Maxim Cournoyer
* doc/build.scm (pdf-manual) Replace texlive-union by texlive-updmap.cfg. * gnu/packages/algebra.scm (pari-gp): Likewise. * gnu/packages/bioinformatics.scm (discrover, velvet): Likewise. * gnu/packages/chez.scm (chez-scheme, chez-web, chez-sockets): Likewise. * gnu/packages/docbook.scm (dblatex): Likewise. * gnu/packages/emacs-xyz.scm (emacs-auctex): Likewise. * gnu/packages/engineering.scm (fastcap): Likewise. * gnu/packages/guile-xyz.scm (emacsy, guile-cv): Likewise. * gnu/packages/lisp.scm (sbcl): Likewise. * gnu/packages/maths.scm (octave, hypre): Likewise. * gnu/packages/music.scm (lilypond): Likewise. * gnu/packages/plotutils.scm (asymptote): Likewise. * gnu/packages/python-xyz.scm (python-numpy-documentation) (python-matplotlib-documentation, python-ipython-documentation) (python-pypandoc): Likewise. * gnu/packages/radio.scm (gnuradio, libosmo-dsp): Likewise. * gnu/packages/scheme.scm (mit-scheme): Likewise. * gnu/packages/statistics.scm (r-with-tests): Likewise. * gnu/packages/tex.scm (simple-texlive-package) (texlive-xmltex, texlive-tiny, texlive-jadetex, teximpatient, lyx): Likewise.
2021-01-22gnu: giac: Update to 1.6.0-47.Nicolas Goaziou
* gnu/packages/algebra.scm (giac): Update to 1.6.0-47.
2021-01-13Merge branch 'staging' into 'core-updates'.Maxim Cournoyer
Conflicts: gnu/local.mk gnu/packages/cmake.scm gnu/packages/curl.scm gnu/packages/gl.scm gnu/packages/glib.scm gnu/packages/guile.scm gnu/packages/node.scm gnu/packages/openldap.scm gnu/packages/package-management.scm gnu/packages/python-xyz.scm gnu/packages/python.scm gnu/packages/tls.scm gnu/packages/vpn.scm gnu/packages/xorg.scm
2021-01-13gnu: cmh: Update source code URL.Ludovic Courtès
Partly fixes <https://bugs.gnu.org/42162>. * gnu/packages/algebra.scm (cmh)[source, home-page]: Refer to multiprecision.org.
2021-01-13gnu: gmp-ecm: Update source URI.Andreas Enge
* gnu/packages/algebra.scm (gmp-ecm): Update source URI from gforge.inria.fr to gitlab.inria.fr.
2021-01-02gnu: giac: Update to 1.6.0-41.Nicolas Goaziou
* gnu/packages/algebra.scm (giac): Update to 1.6.0-41.
2020-12-19gnu: arb: Use HTTPS home page URI.Nicolas Goaziou
* gnu/packages/algebra.scm (arb)[home-page]: Use HTTPS URI. Move above synopsis.
2020-12-17gnu: glpk: Update to 5.0.Efraim Flashner
* gnu/packages/maths.scm (glpk): Update to 5.0. (glpk-4.65): New variable. * gnu/packages/algebra.scm (giac)[inputs]: Replace glpk with glpk-4.
2020-12-13gnu: gp2c: Update to 0.0.12.Andreas Enge
* gnu/packages/algebra.scm (gp2c): Update to 0.0.12.
2020-12-01gnu: bc: Add readline support.John Doe
The ‘--with-readline’ flag does nothing without a readline input. * gnu/packages/algebra.scm (bc)[inputs]: Add readline. Reported by fnstudio in #guix Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
2020-11-23gnu: eigen: Add upstream bugfix patch.Tobias Geerinckx-Rice
This fixes the build of nanopolish, imp, and others. Reported by apteryx in #guix. * gnu/packages/algebra.scm (eigen)[source]: Add patch. * gnu/packages/patches/eigen-remove-openmp-error-counting.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it.
2020-11-19gnu: eigen: Update to 3.3.8.Tobias Geerinckx-Rice
* gnu/packages/algebra.scm (eigen): Update to 3.3.8.
2020-11-11gnu: giac: Update to 1.6.0-31.Nicolas Goaziou
* gnu/packages/algebra.scm (giac): Update to 1.6.0-31.
2020-11-09gnu: eigen: Add source mirror.Efraim Flashner
* gnu/packages/algebra.scm (eigen)[source]: Add Debian source mirror.
2020-11-08gnu: xtensor: Update URIs.Efraim Flashner
* gnu/packages/algebra.scm (xtensor)[source]: Update to new URI. [home-page]: Same.
2020-10-20gnu: pari-gp: Update to 2.13.0.Andreas Enge
* gnu/packages/algebra.scm (pari-gp): Update to 2.13.0.
2020-10-07gnu: giac: Update to 1.6.0-25.Nicolas Goaziou
* gnu/packages/algebra.scm (giac): Update to 1.6.0-25. [native-inputs]: Add hevea.
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.
2020-09-29gnu: giac: Update to 1.6.0-23.Nicolas Goaziou
* gnu/packages/algebra.scm (giac): Update to 1.6.0-23. [arguments]: Fix more hard-coded /bin/cp in Make files. [native-inputs]: Add python-wrapper.
2020-09-28gnu: cm: Update to 0.3.1.Andreas Enge
* gnu/packages/algebra.scm (cm): Update to 0.3.1.
2020-09-23gnu: fplll: Correct include files.Andreas Enge
* gnu/packages/patches/fplll-std-fenv.patch: New patch. * gnu/local.mk (dist_patch_DATA): Register patch. * gnu/packages/algebra.scm (fplll): Use patch and move all inputs to propagated-inputs.
2020-09-23gnu: fplll: Update to 5.3.3.Andreas Enge
* gnu/packages/algebra.scm (fplll): Update to 5.3.3. [native-inputs]: Add pkg-config.
2020-09-01gnu: gap: Update to 4.11.0.Andreas Enge
* gnu/packages/algebra.scm (gap)[source]: Update to 4.11.0. Identify kept packages by name prefix, dropping version number comparisons. [inputs]: Add readline. [arguments]: Use make targets instead of file copying where possible.
2020-08-20gnu: python-fpylll: Update to 0.5.2.Andreas Enge
* gnu/packages/algebra.scm (python-fpylll): Update to 0.5.2.
2020-08-20gnu: fplll: Update to 5.3.2.Andreas Enge
* gnu/packages/algebra.scm (fplll): Update to 5.3.2.
2020-08-19gnu: cmh: Update home-page.Efraim Flashner
* gnu/packages/algebra.scm (cmh)[home-page]: Update to new home-page.
2020-08-18gnu: mpfrcx: Update to 0.6.Andreas Enge
* gnu/packages/algebra.scm (mpfrcx): Update to 0.6.
2020-08-15gnu: flint: Update to 2.6.3.Tobias Geerinckx-Rice
* gnu/packages/algebra.scm (flint): Update to 2.6.3. [license]: Update to LGPL 2.1+.
2020-08-08gnu: flint: Add a comment about the licence.Tobias Geerinckx-Rice
* gnu/packages/algebra.scm (flint): Note the upstream licence change/fix. Reported by Max Horn <max@quendi.de>.
2020-08-08gnu: flint: Update to 2.6.2.Tobias Geerinckx-Rice
* gnu/packages/algebra.scm (flint): Update to 2.6.2.
2020-07-25gnu: flint: Update to 2.6.1.Tobias Geerinckx-Rice
* gnu/packages/algebra.scm (flint): Update to 2.6.1.
2020-07-22arb: Update to 2.18.1.Andreas Enge
* gnu/packages/patches/arb-flint-2.6.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/algebra.scm (arb): Update to 2.18.1. [source](patches): Remove.
2020-07-22gnu: gp2c: Update to 0.0.11pl4.Andreas Enge
* gnu/packages/algebra.scm (gp2c): Update to 0.0.11pl4.
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.
2020-07-10gnu: linbox: Fix linking of dependant packages.Jakub Kądziołka
* gnu/packages/algebra.scm (linbox)[source]: Add a patch. [inputs]: Move fflas-ffpack to... [propagated-inputs]: ...here. * gnu/packages/patches/linbox-fix-pkgconfig.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it.
2020-07-10gnu: arb: Build with flint 2.6.Jakub Kądziołka
Backport an upstream patch to fix a compatibility issue with flint 2.6. * gnu/packages/algebra.scm (arb): Add patch. * gnu/packages/patches/arb-flint-2.6.patch: New file. * gnu/local.mk (dist_patch_DATA): Register new file.
2020-07-10gnu: flint: Build with ntl.Jakub Kądziołka
* gnu/packages/algebra.scm (flint)[inputs]: Add ntl. [arguments]: Pass --with-ntl to configure.
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