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Author SHA1 Message Date
Liliana Marie Prikler
78bfbfb5a7
gnu: cglm: Use meson-build-system. 
The CMake-based builds fail to correctly encode the version, leading to build
failures in dependencies.  See <https://bugs.gnu.org/52663>.

* gnu/packages/maths.scm (cglm)[build-system]: Change to meson-build-system.
[arguments]: Adjust #:configure-flags accordingly.
 2021-12-19 21:46:31 +01:00
Liliana Marie Prikler
42b43c59a5
gnu: cglm: Update to 0.8.4. 
* gnu/packages/maths.scm (cglm): Update to 0.8.4.
 2021-12-19 21:46:30 +01:00
Ludovic Courtès
e3196755e6
gnu: Further simplify package inputs. 
This is the result of running:

  ./pre-inst-env guix style --input-simplification=safe

and manually undoing changes on a dozen of packages to reduce
rebuilds (derivations for emacs, icecat, and libreoffice are unchanged.)
 2021-12-13 22:15:07 +01:00
Ludovic Courtès
8394619bac
gnu: Simplify package inputs. 
This commit was obtained by running:

  ./pre-inst-env guix style

without any additional argument.
 2021-12-13 17:48:25 +01:00
Ludovic Courtès
9155566392
gnu: sundials: Add 'release-monitoring-url' property. 
* gnu/packages/maths.scm (sundials)[properties]: New field.
 2021-12-12 22:16:32 +01:00
Ludovic Courtès
951a4db989
gnu: sundials: Build with '-fcommon'. 
* gnu/packages/maths.scm (sundials)[arguments]: Pass "-DCMAKE_C_FLAGS".
 2021-12-12 22:16:32 +01:00
Efraim Flashner
1da7f9089f
gnu: Add gsl-static. 
* gnu/packages/maths.scm (gsl-static): New variable.
 2021-12-09 23:17:26 +02:00
Ludovic Courtès
95a4965f2d
gnu: python-slepc4py: Update to 3.16.1. 
This is a followup 5b4d1e57b6.

* gnu/packages/maths.scm (slepc-openmpi)[inputs]: Move ARPACK-NG-OPENMPI to...
[propagated-inputs]: ... here.
(python-slepc4py): Update to 3.16.1.
 2021-12-08 23:04:00 +01:00
Ludovic Courtès
fe55ae488b
gnu: python-petsc4py: Update to 3.16.1. 
This is a followup to 07ac13a26a.

* gnu/packages/maths.scm (python-petsc4py): Update to 3.16.1.
 2021-12-08 22:59:44 +01:00
Ludovic Courtès
77c8382bb6
gnu: mumps: Allow compilation with GCC 10. 
Following the suggestion at
<https://community.freefem.org/t/compline-on-macos-10-15-6/543>.

* gnu/packages/maths.scm (mumps)[arguments]: In 'configure' phase, add
'-fallow-argument-mismatch' to 'OPTF'.
 2021-12-08 18:56:53 +01:00
Ricardo Wurmus
9bc0f45df5
Merge remote-tracking branch 'origin/master' into core-updates-frozen 2021-12-05 19:17:41 +01:00
Ricardo Wurmus
c13046cb68
gnu: clapack: Pass -fcommon to compiler. 
* gnu/packages/maths.scm (clapack)[arguments]: Set CFLAGS.
 2021-12-05 15:04:04 +01:00
Ricardo Wurmus
ae0acf6b6d
gnu: clapack: Remove trailing #T. 
* gnu/packages/maths.scm (clapack)[arguments]: Remove trailing #T from build
phases.
 2021-12-05 15:04:04 +01:00
Marius Bakke
db5646d957
gnu: Adjust for python-build-system behavior change. 
Commit cb72f9a773 changed the semantics of
SITE-PACKAGES, but did not adjust all callers.

* gnu/packages/bioinformatics.scm (python-pyvcf)[arguments]: Adjust for
missing trailing slash.
* gnu/packages/maths.scm (nomad-optimizer)[arguments]: Likewise.
* gnu/packages/patchutils.scm (patchwork)[arguments]: Likewise.
 2021-12-05 14:02:10 +01:00
Ludovic Courtès
36f18626a9
gnu: petsc-{complex,openmpi,complex-openmpi}: Use gexps. 
This is a followup to 07ac13a26a, which
omitted to switch to gexps in packages that inherit from 'petsc'.

Reported by Mathieu Othacehe <othacehe@gnu.org>.

* gnu/packages/maths.scm (petsc-complex)[arguments]: Use gexps.
(petsc-openmpi)[arguments]: Likewise.
(petsc-complex-openmpi)[arguments]: Likewise.
 2021-12-01 23:30:15 +01:00
Ludovic Courtès
725d35aa9a
gnu: scalapack: Update to 2.1.0. 
* gnu/packages/maths.scm (scalapack): Update to 2.1.0.
[source]: Remove "scalapack-blacs-mpi-deprecations.patch" and add
"scalapack-gcc-10-compilation.patch".
[arguments]: Add 'skip-faulty-test' phase.
* gnu/packages/patches/scalapack-blacs-mpi-deprecations.patch: Remove.
* gnu/packages/patches/scalapack-gcc-10-compilation.patch: New file.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
 2021-12-01 23:30:15 +01:00
Ludovic Courtès
5b4d1e57b6
gnu: slepc: Update to 3.16.1. 
* gnu/packages/maths.scm (slepc): Update to 3.16.1.
[native-inputs]: Use PYTHON instead of PYTHON-2.  Add WHICH.
[properties]: New field.
 2021-11-29 00:04:03 +01:00
Ludovic Courtès
07ac13a26a
gnu: petsc: Update to 3.16.1. 
* gnu/packages/maths.scm (petsc): Update to 3.16.1.
[native-inputs]: Use PYTHON instead of PYTHON-2.  Add WHICH.
[arguments]: Rewrite using gexps.  Pass '--with-openblas-dir'.  In
'configure' phase, modify "config/example_template.py".
 2021-11-29 00:04:02 +01:00
Ludovic Courtès
d19aff9339
gnu: ceres-solver: Install library to lib/ instead of lib64/. 
* gnu/packages/maths.scm (ceres)[arguments]: In 'set-library-directory'
phase, modify the top-level 'CMakeLists.txt'.
 2021-11-26 13:51:00 +01:00
Ludovic Courtès
51637d57fa
gnu: aris: Build with '-O2'. 
* gnu/packages/maths.scm (aris)[arguments]: Pass "-O2 -g".
 2021-11-25 15:15:20 +01:00
Ricardo Wurmus
06e993d0ee
gnu: opencascade-occt: Use TBB 2020. 
* gnu/packages/maths.scm (opencascade-occt)[inputs]: Replace tbb with
tbb-2020.
 2021-11-22 08:57:37 +01:00
Ludovic Courtès
3a317f7476
Merge branch 'master' into core-updates-frozen 2021-11-17 23:43:14 +01:00
Jean-Baptiste Volatier
546f8537aa
gnu: Add julia-sundials-jull 
* gnu/packages/julia-jll.scm (julia-sundials-jll): New variable.
* gnu/packages/maths.scm (sundials-julia): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2021-11-16 15:16:44 +02:00
Maxim Cournoyer
661b25a2ed
gnu: openblas: Do not build static library. 
* gnu/packages/maths.scm (openblas)[make-flags]: Add NO_STATIC=1.
 2021-11-11 12:18:36 -05:00
Maxim Cournoyer
9e497f44ba
gnu: openblas: Add support for older x86 processors. 
Fixes <https://issues.guix.gnu.org/51452>.

* gnu/packages/maths.scm (openblas)[make-flags]: Make the x86_64, i686,
powerpc64le and aarch64 architectures share the same flags; this causes the
DYNAMIC_OLDER=1 to be added for all of them and TARGET=GENERIC to be added for
the x86_64 and i686 architectures.
 2021-11-11 12:18:36 -05:00
Maxim Cournoyer
bd771edd6c
gnu: openblas: Update to 0.3.18. 
* gnu/packages/maths.scm (openblas): Update to 0.3.18.  Delete trailing #t.
 2021-11-11 12:18:31 -05:00
Efraim Flashner
bc5155b952
Merge remote-tracking branch 'origin/master' into core-updates-frozen 2021-10-31 14:49:47 +02:00
Julien Lepiller
a8c69e22ee
gnu: Add ocaml-z3. 
* gnu/packages/maths.scm (ocaml-z3): New variable.
 2021-10-28 00:25:59 +02:00
Liliana Marie Prikler
505d53a4b4
gnu: Add clingo. 
* gnu/packages/maths.scm (clingo): New variable.
 2021-10-24 20:25:02 +02:00
Liliana Marie Prikler
2dfc574b13
gnu: Add clasp. 
* gnu/packages/maths.scm (clasp): New variable.
 2021-10-24 20:25:02 +02:00
Liliana Marie Prikler
92d3f2673e
gnu: Add libpotassco. 
* gnu/packages/maths.scm (libpotassco): New variable.
 2021-10-24 20:25:01 +02:00
Ludovic Courtès
22e753b9b1
gnu: hdf-java: Look for jars in the right place. 
* gnu/packages/maths.scm (hdf-java)[arguments]: Look for slf4j .jar
files in the right place rather than share/java.
 2021-10-23 23:19:02 +02:00
Ludovic Courtès
2dffe4767c
gnu: Use 'search-input-file' some more. 
This patch replaces occurrences of:

  (string-append (assoc-ref %build-inputs "…") "/…")

by:

  (search-input-file %build-inputs "/…")

* doc/guix.texi (Miscellaneous Services): Use 'search-input-file' in R
Shiny example.
* gnu/packages/admin.scm (screenfetch): Use 'search-input-file'.
(ufetch): Likewise.
(hosts): Likewise.
* gnu/packages/backup.scm (dirvish): Likewise.
* gnu/packages/code.scm (colormake): Likewise.
* gnu/packages/compression.scm (makeself-safeextract): Likewise.
* gnu/packages/debug.scm (scanmem): Likewise.
* gnu/packages/education.scm (snap): Likewise.
(omnitux): Likewise.
* gnu/packages/emacs-xyz.scm (epipe): Likewise.
* gnu/packages/games.scm (openttd-opensfx): Likewise.
(openttd-openmsx): Likewise.
(openrct2-title-sequences):  Likewise.
(openrct2-objects):  Likewise.
(mrrescue):  Likewise.
(0ad-data):  Likewise.
(xonotic-data):  Likewise.
(drascula):  Likewise.
(make-lure-package):  Likewise.
(make-queen-package):  Likewise.
(sky):  Likewise.
* gnu/packages/gnome.scm (network-manager): Likewise.
* gnu/packages/gnuzilla.scm (icedove): Likewise.
* gnu/packages/guile-xyz.scm (guile-shapefile): Likewise.
* gnu/packages/hurd.scm (netdde): Likewise.
* gnu/packages/javascript.scm (js-context-menu): Likewise.
(js-commander): Likewise.
(js-xmldom-sre): Likewise.
* gnu/packages/kde-frameworks.scm (krunner): Likewise.
* gnu/packages/kodi.scm (kodi-cli): Likewise.
* gnu/packages/libreoffice.scm (hunspell-dict-pl): Likewise.
* gnu/packages/linux.scm (e2fsck/static): Likewise.
* gnu/packages/markup.scm (markdown): Likewise.
* gnu/packages/maths.scm (hdf-java): Likewise.
* gnu/packages/multiprecision.scm (libtomcrypt): Likewise.
* gnu/packages/networking.scm (batctl): Likewise.
* gnu/packages/python-xyz.scm (python-pymediainfo): Likewise.
* gnu/packages/shells.scm (fish-foreign-env): Likewise.
* gnu/packages/tex.scm (texlive-fonts-iwona): Likewise.
* gnu/packages/upnp.scm (miniupnpc): Likewise.
* gnu/packages/version-control.scm (git-annex-remote-rclone): Likewise.
* gnu/packages/virtualization.scm (qemu): Likewise.
* gnu/packages/web.scm (icedtea-web): Likewise.
* gnu/packages/wm.scm (stumpish): Likewise.
 2021-10-23 23:05:21 +02:00
Tobias Geerinckx-Rice
7c78397593
gnu: hdf5@1.12: Update to 1.12.1. 
* gnu/packages/maths.scm (hdf5-1.12): Update to 1.12.1.
 2021-10-18 21:00:45 +02:00
Mathieu Othacehe
a1eca979fb
Merge remote-tracking branch 'origin/master' into core-updates-frozen. 2021-10-12 17:46:23 +00:00
Julien Lepiller
6516e88fe3
gnu: frama-c: Update to 23.1. 
* gnu/packages/maths.scm (frama-c): Update to 23.1.
 2021-10-08 04:34:00 +02:00
Julien Lepiller
26dd2321fe
gnu: why3: Update to 1.4.0. 
* gnu/packages/maths.scm (why3): Update to 1.4.0.
 2021-10-08 04:33:58 +02:00
Ludovic Courtès
16e3f8d90a
gnu: mcrl2: Update hash of modified-in-place tarball. 
Fixes <https://issues.guix.gnu.org/51074>.

* gnu/packages/maths.scm (mcrl2)[source]: Update hash.
 2021-10-07 12:52:44 +02:00
Liliana Marie Prikler
95c88e381b
gnu: Add minizinc. 
* gnu/packages/maths.scm (minizinc): New variable.
 2021-09-25 14:18:02 +02:00
Liliana Marie Prikler
93cef6e768
gnu: Add gecode. 
* gnu/packages/maths.scm (gecode): New variable.
 2021-09-25 14:18:02 +02:00
Ludovic Courtès
3cdb16cb50
gnu: fp16: Install Python files in the site directory. 
* gnu/packages/maths.scm (fp16)[arguments]: New field.
 2021-09-24 13:48:49 +02:00
Marius Bakke
5c3cb22c9b
Merge branch 'master' into core-updates-frozen 
Conflicts:
	gnu/packages/bioinformatics.scm
	gnu/packages/chez.scm
	gnu/packages/docbook.scm
	gnu/packages/ebook.scm
	gnu/packages/gnome.scm
	gnu/packages/linux.scm
	gnu/packages/networking.scm
	gnu/packages/python-web.scm
	gnu/packages/python-xyz.scm
	gnu/packages/tex.scm
	gnu/packages/version-control.scm
	gnu/packages/xml.scm
	guix/build-system/dune.scm
	guix/build-system/go.scm
	guix/build-system/linux-module.scm
	guix/packages.scm
 2021-09-17 01:25:52 +02:00
Guillaume Le Vaillant
bad54e6384
gnu: aris: Fix build. 
* gnu/packages/maths.scm (aris)[arguments]: Pass '-fcommon' to CFLAGS.
 2021-09-16 10:18:19 +02:00
Ludovic Courtès
921595fa65
gnu: gsl: Comment out more tests that fail on i686-linux. 
* gnu/packages/maths.scm (gsl)[arguments]: In 'disable-failing-tests'
phase, comment out more tests.
 2021-09-14 15:49:56 +02:00
Nicolas Goaziou
e02984ac4e
gnu: nauty: Update to 2.7r3. 
* gnu/packages/maths.scm (nauty): Update to 2.7r3.
 2021-09-11 23:15:02 +02:00
Ludovic Courtès
7be2b83102
gnu: netcdf-parallel-openmpi: Allow compilation with GCC 10. 
* gnu/packages/maths.scm (netcdf)[source]: Add 'modules' and 'snippet'.
 2021-09-11 18:14:07 +02:00
Ludovic Courtès
d9dfbf886d
Merge branch 'master' into core-updates-frozen 2021-09-07 14:19:08 +02:00
Ludovic Courtès
b949f34f31
gnu: Use the non-deprecated TeX packages. 
This commit leaves 'dblatex' and 'texlive-hyperref' as users of
deprecated packages, but these have many dependents.

* gnu/packages/bioinformatics.scm (discrover)[native-inputs]: Use
non-deprecated TeX Live packages.
(velvet)[native-inputs]: Likewise.
* gnu/packages/chez.scm (chez-scheme)[native-inputs]: Likewise.
(chez-web)[native-inputs]: Likewise.
* gnu/packages/engineering.scm (fastcap)[native-inputs]: Likewise.
* gnu/packages/guile-xyz.scm (emacsy)[native-inputs]: Likewise.
* gnu/packages/maths.scm (hypre)[native-inputs]: Likewise.
* gnu/packages/music.scm (lilypond)[native-inputs]: Likewise.
* gnu/packages/ocaml.scm (ocaml-bibtex2html)[native-inputs]: Likewise.
* gnu/packages/plotutils.scm (asymptote)[native-inputs]: Likewise.
* gnu/packages/python-xyz.scm (python-numpy-documentation)[native-inputs]:
Likewise.
(python-matplotlib-documentation)[native-inputs]: Likewise.
(python-ipython-documentation)[native-inputs]: Likewise.
(python-nbconvert)[native-inputs]: Likewise.
(python-pypandoc)[native-inputs]: Likewise.
* gnu/packages/statistics.scm (r-with-tests)[native-inputs]: Likewise.
* gnu/packages/tex.scm (texlive-pstool)[propagated-inputs]: Likewise.
(teximpatient)[native-inputs]: Likewise.
(texlive-latex-pgf)[propagated-inputs]: Likewise.
(texlive-beamer)[propagated-inputs]: Likewise.
 2021-09-06 22:02:15 +02:00
Tobias Geerinckx-Rice
0eea6168c1
gnu: vc: Update to 1.4.2. 
* gnu/packages/maths.scm (vc): Update to 1.4.2.
 2021-09-04 22:09:01 +02:00
Nicolas Goaziou
1943f17f90
gnu: nauty: Update to 2.7r2. 
* gnu/packages/maths.scm (nauty): Update to 2.7r2.
 2021-09-04 08:03:55 +02:00