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Author SHA1 Message Date
Tobias Geerinckx-Rice ba902a1598
gnu: eigen: Add upstream bugfix patch. 
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.
 2020-11-23 19:22:31 +01:00
Tobias Geerinckx-Rice 2d2ac74237
gnu: eigen: Update to 3.3.8. 
* gnu/packages/algebra.scm (eigen): Update to 3.3.8.
 2020-11-19 00:08:40 +01:00
Nicolas Goaziou 191a4ced8e
gnu: giac: Update to 1.6.0-31. 
* gnu/packages/algebra.scm (giac): Update to 1.6.0-31.
 2020-11-11 14:14:17 +01:00
Efraim Flashner 57797b8533
gnu: eigen: Add source mirror. 
* gnu/packages/algebra.scm (eigen)[source]: Add Debian source mirror.
 2020-11-09 09:54:52 +02:00
Efraim Flashner 7c30e2348b
gnu: xtensor: Update URIs. 
* gnu/packages/algebra.scm (xtensor)[source]: Update to new URI.
[home-page]: Same.
 2020-11-08 22:43:39 +02:00
Andreas Enge 6657d73942
gnu: pari-gp: Update to 2.13.0. 
* gnu/packages/algebra.scm (pari-gp): Update to 2.13.0.
 2020-10-20 17:11:15 +02:00
Nicolas Goaziou 1ceeaa5dff
gnu: giac: Update to 1.6.0-25. 
* gnu/packages/algebra.scm (giac): Update to 1.6.0-25.
[native-inputs]: Add hevea.
 2020-10-07 21:38:40 +02:00
Efraim Flashner 1628d57bb5
gnu: Fix package references. 
* 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.
 2020-09-30 09:28:26 +03:00
Nicolas Goaziou 07c3c3ba53
gnu: giac: Update to 1.6.0-23. 
* 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.
 2020-09-29 13:57:38 +02:00
Andreas Enge 4c09ec43db
gnu: cm: Update to 0.3.1. 
* gnu/packages/algebra.scm (cm): Update to 0.3.1.
 2020-09-28 19:39:23 +02:00
Andreas Enge 049a1714fc
gnu: fplll: Correct include files. 
* 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.
 2020-09-23 14:14:09 +02:00
Andreas Enge 82f983da35
gnu: fplll: Update to 5.3.3. 
* gnu/packages/algebra.scm (fplll): Update to 5.3.3.
[native-inputs]: Add pkg-config.
 2020-09-23 13:59:32 +02:00
Andreas Enge 42ed53173e
gnu: gap: Update to 4.11.0. 
* 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.
 2020-09-01 13:27:42 +02:00
Andreas Enge 280455809d
gnu: python-fpylll: Update to 0.5.2. 
* gnu/packages/algebra.scm (python-fpylll): Update to 0.5.2.
 2020-08-20 19:27:10 +02:00
Andreas Enge b9ef00258c
gnu: fplll: Update to 5.3.2. 
* gnu/packages/algebra.scm (fplll): Update to 5.3.2.
 2020-08-20 19:23:03 +02:00
Efraim Flashner e188d2f8aa
gnu: cmh: Update home-page. 
* gnu/packages/algebra.scm (cmh)[home-page]: Update to new home-page.
 2020-08-19 21:34:41 +03:00
Andreas Enge 5f8ea8e491
gnu: mpfrcx: Update to 0.6. 
* gnu/packages/algebra.scm (mpfrcx): Update to 0.6.
 2020-08-18 16:50:32 +02:00
Tobias Geerinckx-Rice eefa30c1c6
gnu: flint: Update to 2.6.3. 
* gnu/packages/algebra.scm (flint): Update to 2.6.3.
[license]: Update to LGPL 2.1+.
 2020-08-15 22:09:06 +02:00
Tobias Geerinckx-Rice 2d80caa86c
gnu: flint: Add a comment about the licence. 
* gnu/packages/algebra.scm (flint): Note the upstream licence change/fix.

Reported by Max Horn <max@quendi.de>.
 2020-08-08 21:22:39 +02:00
Tobias Geerinckx-Rice a8139e9785
gnu: flint: Update to 2.6.2. 
* gnu/packages/algebra.scm (flint): Update to 2.6.2.
 2020-08-08 14:27:07 +02:00
Tobias Geerinckx-Rice fa0c177493
gnu: flint: Update to 2.6.1. 
* gnu/packages/algebra.scm (flint): Update to 2.6.1.
 2020-07-25 22:13:24 +02:00
Andreas Enge 7dcf529673
arb: Update to 2.18.1. 
* 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.
 2020-07-22 12:20:24 +02:00
Andreas Enge e239135c56
gnu: gp2c: Update to 0.0.11pl4. 
* gnu/packages/algebra.scm (gp2c): Update to 0.0.11pl4.
 2020-07-22 12:13:04 +02:00
Ludovic Courtès b0e7b6992f
gnu: Remove ".git" from "https://github/…/….git". 
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.
 2020-07-12 23:08:15 +02:00
Jakub Kądziołka 781d03f135
gnu: linbox: Fix linking of dependant packages. 
* 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.
 2020-07-10 23:03:41 +02:00
Jakub Kądziołka 417eaa88dc
gnu: arb: Build with flint 2.6. 
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.
 2020-07-10 23:03:41 +02:00
Jakub Kądziołka d7c8bcc47c
gnu: flint: Build with ntl. 
* gnu/packages/algebra.scm (flint)[inputs]: Add ntl.
  [arguments]: Pass --with-ntl to configure.
 2020-07-10 23:03:41 +02:00
Jakub Kądziołka 16e34f7598
gnu: flint: Update to 2.6.0. 
* gnu/packages/algebra.scm (flint): Update to 2.6.0.
* gnu/packages/patches/flint-ldconfig.patch: Remove the patch as it got
  applied upstream.
* gnu/local.mk (dist_patch_DATA): Deregister the removed file.
 2020-07-10 23:03:40 +02:00
Nicolas Goaziou 41c32695e5
gnu: giac: Update to 1.6.0-7. 
* gnu/packages/algebra.scm (giac): Update to 1.6.0-7.
 2020-07-08 18:42:38 +02:00
Nicolas Goaziou af0307a099
gnu: symengine: Fix indentation. 
* gnu/packages/algebra.scm (symengine): Fix indentation and apply small
cosmetic fixes.
 2020-06-24 19:46:55 +02:00
Vinicius Monego d0337a226b
gnu: Add symengine. 
* gnu/packages/algebra.scm (symengine): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2020-06-24 19:38:32 +02:00
Tobias Geerinckx-Rice 3320966068
gnu: singular: Update to 4.1.3p2. 
* gnu/packages/algebra.scm (singular): Update to 4.1.3p2.
 2020-06-09 22:30:09 +02:00
Tobias Geerinckx-Rice 28d6b57c38
gnu: singular: Update to 4.1.3p1. 
* gnu/packages/algebra.scm (singular): Update to 4.1.3p1.
 2020-06-05 19:33:10 +02:00
Marius Bakke 87a40d7203
Merge branch 'master' into core-updates 2020-05-05 20:43:21 +02:00
Vincent Legoll feba2c9751
gnu: Add lmfit. 
* gnu/packages/algebra.scm (lmfit): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-05-04 10:26:33 +02:00
Marius Bakke 030f6f489f
Merge branch 'master' into core-updates 
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
 2020-04-23 13:33:09 +02:00
Andreas Enge f916ac128a
gnu: pari-gp: Update to 2.11.4. 
* gnu/packages/algebra.scm (pari-gp): Update to 2.11.4.
 2020-04-22 18:29:52 +02:00
Marius Bakke 2778302399
Merge branch 'master' into core-updates 
Conflicts:
	etc/news.scm
	gnu/local.mk
	gnu/packages/check.scm
	gnu/packages/cross-base.scm
	gnu/packages/gimp.scm
	gnu/packages/java.scm
	gnu/packages/mail.scm
	gnu/packages/sdl.scm
	gnu/packages/texinfo.scm
	gnu/packages/tls.scm
	gnu/packages/version-control.scm
 2020-04-08 13:00:50 +02:00
Andreas Enge 11abc24a03
gnu: gp2c: Update to 0.0.11pl3. 
* gnu/packages/algebra.scm (gp2c): Update to 0.0.11pl3.
 2020-04-07 14:01:38 +02:00
Andreas Enge bf82d83c60
gnu: pari-gp: Update to 2.11.3. 
* gnu/packages/algebra.scm (pari-gp): Update to 2.11.3.
 2020-04-07 14:01:38 +02:00
Marius Bakke ae0badf5bb
Merge branch 'master' into core-updates 
Conflicts:
	gnu/packages/admin.scm
	gnu/packages/commencement.scm
	gnu/packages/guile.scm
	gnu/packages/linux.scm
	gnu/packages/package-management.scm
	gnu/packages/pulseaudio.scm
	gnu/packages/web.scm
 2020-03-30 12:17:33 +02:00
Jakub Kądziołka 7cc9e1dc5a
algebra.scm: Add a copyright line 
This is a follow-up to commit d96ad7fa1d.
 2020-03-29 18:01:07 +02:00
Jakub Kądziołka d96ad7fa1d
gnu: ntl: Update to 11.4.3. 
* gnu/packages/algebra.scm (ntl): Update to 11.4.3.
  [source], [home-page]: Use https URL.
  [source](snippet): Remove bundled libtool.
  [inputs]: Add gf2x.
  [arguments](configure): Use invoke insteam of system*. Remove the no longer
  supported WIZARD argument. Add a LIBTOOL parameter, since it's now
  required. Enable building with gf2x. Pass the paths to dependencies
  explicitly.
  (eclib)[inputs]: Remove the transitive dependency on gmp, which is now
  handled automatically by libtool.
 2020-03-29 17:53:56 +02:00
Tobias Geerinckx-Rice d8006740b9
gnu: Remove packages deprecated for over a year. 
* gnu/packages/admin.scm (intel-gpu-tools): Remove variable.
* gnu/packages/algebra.scm (giac-xcas): Likewise.
 2020-03-29 01:24:10 +01:00
Marius Bakke c4d769d359
Merge branch 'master' into core-updates 2020-03-18 19:41:08 +01:00
Marius Bakke 961d2ee269
Merge branch 'master' into core-updates 2020-03-14 13:13:40 +01:00
Tobias Geerinckx-Rice 5144e31492
gnu: eigen: Update to 3.3.7. 
* gnu/packages/algebra.scm (eigen): Update to 3.3.7.
[source]: Add a patch to fix a test failure.
* gnu/packages/patches/eigen-stabilise-sparseqr-test.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
 2020-03-17 03:00:18 +01:00
Björn Höfling 9f5eeb879f
gnu: java-jlargearrays: Update source URI. 
* gnu/packages/algebra.scm (java-jlargearrays)[source]: Update URI.
 2020-03-10 23:35:12 +01:00
Björn Höfling 4c87770442
gnu: java-jtransforms: Update source URI. 
* gnu/packages/algebra.scm (java-jtransforms)[source]: Update URI.
 2020-03-10 23:35:12 +01:00
Marius Bakke ebb7cf9e21
Merge branch 'master' into core-updates 2020-03-04 23:16:17 +01:00