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* Merge branch 'master' into core-updatesMarius Bakke2021-05-09
|\ | | | | | | | | | | | | | | | | | | | | | | | | | | | | Conflicts: gnu/local.mk gnu/packages/bioinformatics.scm gnu/packages/django.scm gnu/packages/gtk.scm gnu/packages/llvm.scm gnu/packages/python-web.scm gnu/packages/python.scm gnu/packages/tex.scm guix/build-system/asdf.scm guix/build/emacs-build-system.scm guix/profiles.scm
| * gnu: Add cglm.Tobias Geerinckx-Rice2021-05-06
| | | | | | | | * gnu/packages/maths.scm (cglm): New public variable.
| * gnu: Add libcerf.Vinicius Monego2021-05-05
| | | | | | | | | | | | * gnu/packages/maths.scm (libcerf): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| * gnu: octave, octave-cli: Explain difference.Konrad Hinsen2021-05-03
| | | | | | | | | | | | * gnu/packages/maths.scm (octave-cli, octave): Extended synopsis. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| * gnu: xaos: Update to 4.2.1.Kei Kebreau2021-04-29
| | | | | | | | | | * gnu/packages/maths.scm (xaos): Update to 4.2.1. [arguments]: Patch call to "lrelease" in XaoS.pro.
| * gnu: wxmaxima: Update to 21.04.0.Kei Kebreau2021-04-21
| | | | | | | | * gnu/packages/maths.scm (wxmaxima): Update to 21.04.0.
* | Merge remote-tracking branch 'origin/master' into core-updatesEfraim Flashner2021-04-16
|\| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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
| * gnu: blis: Add deprecated aliases.Ludovic Courtès2021-04-12
| | | | | | | | | | | | | | Add deprecated aliases for packages removed in the parent commit. * gnu/packages/maths.scm (blis-sandybridge, blis-haswell, blis-knl): New variables.
| * gnu: blis: Update to 0.8.1.Philip McGrath2021-04-12
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (make-blis): Remove internal function. Inline into ... (bliss): ... this variable. Update to 0.8.1. [native-inputs]: Add "python" and "perl". [arguments]: Adjust 'configure' phase to take advantage of new support for "configuration families" with runtime hardware detection. Select configuration automatically based on target systems, and allow "--blis-config=" in #:configure-flags to override the default. When building for x86_64, include all supported microarchetecture specializations. Add "--enable-verbose-make" configure flag for better build logs. Stop ignoring other flags from #:configure-flags. Remove explicit #:substitutable? argument: the package is now always substitutable. Add (srfi srfi-1) to #:modules. (blis/x86_64): Remove internal macro. (blis-sandybridge): Remove package: included in 'blis'. (blis-haswell): Remove package: included in 'blis'. (blis-knl): Remove package: included in 'blis'. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| * gnu: python-sip: Update to 5.5.0. Add python-sip-4Brendan Tildesley2021-04-09
| | | | | | | | | | | | | | | | | | * gnu/packages/qt.scm (python-sip): Update to 5.5.0. (python-sip-4): New variable. Rename the old python-sip to python-sip-4. (python2-sip): Inherit from python-sip-4. * gnu/packages/maths.scm (veusz)[native-inputs]: Use python-sip-4. * gnu/packages/pdf.scm (python-poppler-qt5): Use python-sip-4. * gnu/packages/geo.scm (qgis)[arguments]: Fix build for python-sip@5.
| * gnu: Add scotch and pt-scotch with shared librariesFranck Pérignon2021-04-06
| | | | | | | | | | | | * gnu/packages/maths.scm (scotch-shared, pt-scotch-shared): New variables. Signed-off-by: Leo Famulari <leo@famulari.name>
| * gnu: suitesparse: Update to 5.9.0.Felix Gruber2021-04-05
| | | | | | | | | | | | | | * gnu/packages/maths.scm (suitesparse): Update to 5.9.0. [arguments]: Use cc-for-target instead of hard-coding gcc. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
| * gnu: metis: Add 'release-monitoring-url' property.Ludovic Courtès2021-03-29
| | | | | | | | * gnu/packages/maths.scm (metis)[properties]: New field.
* | Merge remote-tracking branch 'origin/master' into core-updatesEfraim Flashner2021-03-24
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| * gnu: wxmaxima: Update to 21.02.0.Kei Kebreau2021-03-13
| | | | | | | | * gnu/packages/maths.scm (wxmaxima): Update to 21.02.0.
* | Merge branch 'master' into core-updatesChristopher Baines2021-03-06
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| * gnu: octave: Update to 6.2.0.Efraim Flashner2021-03-02
| | | | | | | | | | | | * gnu/packages/maths.scm (octave): Update to 6.2.0. [source]: Download tar.xz tarball. [native-inputs]: Remove lzip.
| * gnu: slepc: Use HTTPS home page URI.Nicolas Goaziou2021-02-28
| | | | | | | | * gnu/packages/maths.scm (slepc)[home-page]: Use HTTPS URI.
| * gnu: elpa: Use HTTPS home page URI.Nicolas Goaziou2021-02-28
| | | | | | | | * gnu/packages/maths.scm (elpa)[home-page]: Use HTTPS URI.
| * gnu: Add HDF5 1.12.0.Gerd Heber2021-02-21
| | | | | | | | | | | | * gnu/packages/maths.scm (hdf5-1.12): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
* | Merge branch 'master' into core-updatesDanny Milosavljevic2021-02-11
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| * gnu: wxmaxima: Update to 21.01.0.Kei Kebreau2021-02-09
| | | | | | | | | | * gnu/packages/maths.scm (wxmaxima): Update to 21.01.0. [inputs]: Remove libomp.
| * gnu: hdf5: Update to 1.8.22.Eric Bavier2021-02-08
| | | | | | | | | | | | | | | | | | | | Fixes CVE-2018-14033, CVE-2018-11206, CVE-2018-13870, CVE-2018-13869, and CVE-2018-17435 * gnu/packages/maths.scm (hdf5-1.8): Update to 1.8.22. * gnu/packages/patches/hdf5-1.8-mpi-deprecations.patch: Delete upstreamed patch. * gnu/local/mk (dist_patch_DATA): Remove it.
* | Merge branch 'master' into core-updatesChristopher Baines2021-02-03
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| * gnu: wxmaxima: Update to 20.12.2.Kei Kebreau2021-01-17
| | | | | | | | | | | | | | | | * gnu/packages/maths.scm (wxmaxima): Update to 20.12.2. [arguments]: Remove #:test-target and disable tests. Remove 'pre-check phase. [native-inputs]: Remove xorg-server-for-tests. [inputs]: Add libomp.
| * gnu: gnuplot: Update to 5.4.1.Kei Kebreau2021-01-17
| | | | | | | | | | * gnu/packages/maths.scm (gnuplot): Update to 5.4.1. [arguments]: Set GNUTERM in #:make-flags.
* | gnu: Adjust package collection to Wrap using GUIX_PYTHONPATH.Maxim Cournoyer2021-02-01
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This change was automated using: $ git ls-files | grep .scm | \ xargs sed 's/(getenv "PYTHONPATH")/(getenv "GUIX_PYTHONPATH")/' -i $ git ls-files | grep .scm | \ xargs sed 's/`("PYTHONPATH"/`("GUIX_PYTHONPATH"/' -i * gnu/packages/admin.scm (nmap): (dstat): Wrap using GUIX_PYTHONPATH. * gnu/packages/audio.scm (jack-2): (carla): Likewise. * gnu/packages/benchmark.scm (fio): Likewise. * gnu/packages/bioinformatics.scm (couger): Likewise. (gess, find-circ, filtlong, nanopolish): Likewise. * gnu/packages/cdrom.scm (cdemu-client): Likewise. * gnu/packages/chemistry.scm (avogadro): Likewise. * gnu/packages/connman.scm (econnman): Likewise. * gnu/packages/cups.scm (hplip): Likewise. * gnu/packages/debug.scm (scanmem): Likewise. * gnu/packages/display-managers.scm (lightdm): Likewise. * gnu/packages/ebook.scm (cozy): Likewise. * gnu/packages/education.scm (anki): Likewise. * gnu/packages/engineering.scm (kicad, volk, freecad): Likewise. * gnu/packages/game-development.scm (renpy): Likewise. * gnu/packages/games.scm (roguebox-adventures) (seahorse-adventures, kajongg): Likewise. * gnu/packages/gimp.scm (gimp, glimpse): Likewise. * gnu/packages/glib.scm (itstool): Likewise. * gnu/packages/gnome.scm (gnome-music, gtg, rhythmbox): Likewise. (eolie, d-feet, gedit, caribou, gnome-shell, authenticator) (gnome-todo, orca, passwordsafe, terminator, setzer) (libratbag, komikku): Likewise. * gnu/packages/gps.scm (gpsd): Likewise. * gnu/packages/gtk.scm (gtk-doc): Likewise. * gnu/packages/ibus.scm (ibus, ibus-libpinyin, ibus-anthy) (ibus-libhangul): Likewise. * gnu/packages/inkscape.scm (inkscape-1.0): Likewise. * gnu/packages/linux.scm (bcc): Likewise. * gnu/packages/mail.scm (notifymuch): Likewise. * gnu/packages/maths.scm (units): Likewise. * gnu/packages/music.scm (solfege): Likewise. * gnu/packages/networking.scm (blueman): Likewise. * gnu/packages/patchutils.scm (patchwork): Likewise. * gnu/packages/photo.scm (rapid-photo-downloader, entangle): Likewise. * gnu/packages/plotutils.scm (asymptote): Likewise. * gnu/packages/presentation.scm (presentty): Likewise. * gnu/packages/screen.scm (byobu): Likewise. * gnu/packages/storage.scm (ceph): Likewise. * gnu/packages/syndication.scm (liferea): Likewise. * gnu/packages/task-management.scm (blanket): Likewise. * gnu/packages/text-editors.scm (manuskript): Likewise. * gnu/packages/version-control.scm (gitless, cgit, git-when-merged) (git-imerge): Likewise. * gnu/packages/video.scm (pitivi): Likewise. * gnu/packages/virtualization.scm (criu): Likewise. * gnu/packages/xfce.scm (catfish): Likewise.
* | gnu: Replace all uses of texlive-union by texlive-updmap.cfg.Maxim Cournoyer2021-01-29
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * 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.
* | Merge branch 'staging' into 'core-updates'.Maxim Cournoyer2021-01-13
|\| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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
| * gnu: suitesparse: Install libraries into /lib.Efraim Flashner2021-01-04
| | | | | | | | | | | | * gnu/packages/maths.scm (suitesparse)[arguments]: Add to configure-flags to install programs built with cmake to use 'lib', not 'lib64.'
| * gnu: matio: Update to 1.5.19.Vincent Legoll2020-12-31
| | | | | | | | | | | | * gnu/packages/maths.scm (matio): Update to 1.5.19. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
| * gnu: octave, octave-cli: Update to 6.1.0.Greg Hogan2020-12-22
| | | | | | | | | | | | * gnu/packages/maths.scm (octave, octave-cli): Update to 6.1.0. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| * gnu: glpk: Don't build static library.Efraim Flashner2020-12-17
| | | | | | | | | | * gnu/packages/maths.scm (glpk)[arguments]: Add configure-flag to skip static library.
| * gnu: glpk: Update to 5.0.Efraim Flashner2020-12-17
| | | | | | | | | | | | * 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.
| * gnu: veusz: Update to 3.3.1.Vinicius Monego2020-12-13
| | | | | | | | | | | | * gnu/packages/maths.scm (veusz): Update to 3.3.1. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
| * gnu: sleef: Update to 3.5.1.Vinicius Monego2020-12-12
| | | | | | | | | | | | * gnu/packages/maths.scm (sleef): Update to 3.5.1. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
| * gnu: dealii: Update to 9.2.0.Eric Bavier2020-12-09
| | | | | | | | * gnu/packages/maths.scm (dealii): Update to 9.2.0.
| * gnu: Add tiny-bignum.Ryan Prior2020-12-08
| | | | | | | | | | | | * gnu/packages/maths.scm (tiny-bignum): New variable. Signed-off-by: Christopher Baines <mail@cbaines.net>
| * gnu: superlu-dist: Update to 6.4.0.Eric Bavier2020-12-05
| | | | | | | | | | | | | | * gnu/packages/maths.scm (superlu-dist): Update to 6.4.0 [source]: Use git-fetch, as tarballs are no longer published. * gnu/packages/patches/superlu-dist-awpm-grid.patch: Remove all but the first hunk; they are unnecessary.
| * gnu: scotch: Update to 6.1.0Eric Bavier2020-12-05
| | | | | | | | * gnu/packages/maths.scm (scotch): Update to 6.1.0.
| * gnu: metamath: Update to 0.193.Tobias Geerinckx-Rice2020-12-01
| | | | | | | | * gnu/packages/maths.scm (metamath): Update to 0.193.
* | gnu: openblas: Update to 0.3.13.Greg Hogan2020-12-27
| | | | | | | | | | | | * gnu/packages/maths.scm (openblas): Update to 0.3.13. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* | gnu: hypre: Remove obsolete build phase.Ricardo Wurmus2020-12-23
| | | | | | | | | | * gnu/packages/maths.scm (hypre)[arguments]: Remove obsolete build phase "set-HOME".
* | Merge remote-tracking branch 'origin/master' into core-updatesChristopher Baines2020-11-29
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| * gnu: units: Update to 2.21.Tobias Geerinckx-Rice2020-11-17
| | | | | | | | * gnu/packages/maths.scm (units): Update to 2.21.
| * gnu: z3: Update to 4.8.9.Martin Becze2020-11-16
| | | | | | | | | | | | * gnu/packages/maths.scm (z3): Update to 4.8.9. Signed-off-by: Christopher Baines <mail@cbaines.net>
| * gnu: superlu: Update to 5.2.2.Tobias Geerinckx-Rice2020-11-15
| | | | | | | | * gnu/packages/maths.scm (superlu): Update to 5.2.2.
| * gnu: python-petsc4py: Fix build with python 3.8.Paul Garlick2020-11-11
| | | | | | | | | | * gnu/packages/maths.scm (python-petsc4py)[source]: Add snippet. [native-inputs]: New field.
| * gnu: netcdf-fortran: Update to 4.5.3.Christopher Baines2020-10-26
| | | | | | | | | | | | This allows the package to build with netcdf 4.7.4. * gnu/packages/maths.scm (netcdf-fortran): Update to 4.5.3.
| * gnu: netcdf: Update to 4.7.4.Christopher Baines2020-10-26
| | | | | | | | | | | | | | | | | | | | | | This will fix an issue building qgis. * gnu/packages/maths.scm (netcdf): Update to 4.7.4. [source]: Remove the netcdf-tst_h_par.patch, also change the naming of the source tarball, as the name seems to have changed for recent releases. [inputs]: Update hdf5 and add curl. * gnu/packages/patches/netcdf-tst_h_par.patch: Delete. * gnu/local.mk (dist_patch_DATA): Remove deleted patch.
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