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Author SHA1 Message Date
Mark H Weaver
e7ca634912
Merge branch 'master' into core-updates 2018-02-03 22:46:07 -05:00
Eric Bavier
c684008992
gnu: slepc: Apply invoke to configure flags. 
Follow-up to 94a1eb96d3

* gnu/packages/maths.scm (slepc)[arguments]: Use 'apply' since 'flags' is a
list of configure arguments.
 2018-02-02 08:26:59 -06:00
Eric Bavier
e01397b489
gnu: Add Elemental. 
* gnu/packages/maths.scm (elemental): New variable.
 2018-02-02 08:26:59 -06:00
Marius Bakke
bee7bb315c
Merge branch 'master' into core-updates 2018-02-01 13:18:47 +01:00
Tobias Geerinckx-Rice
cc809f1636
gnu: slepc: Update to 3.8.2. 
* gnu/packages/maths.scm (slepc): Update to 3.8.2.
 2018-01-29 00:23:27 +01:00
Tobias Geerinckx-Rice
3c524f2153
gnu: slepc: Update licence. 
SLEPc has been released under a 2-clause BSD licence since version 3.8.

* gnu/packages/maths.scm (slepc)[licence]: Switch to bsd-2.
 2018-01-29 00:23:27 +01:00
Tobias Geerinckx-Rice
94a1eb96d3
gnu: fbcat, slepc: Use INVOKE. 
* gnu/packages/linux.scm (fbcat)[arguments]: Substitute INVOKE for
SYSTEM*.
* gnu/packages/maths.scm (slepc)[arguments]: Likewise.
 2018-01-29 00:23:27 +01:00
Tobias Geerinckx-Rice
59cd0ba4ab
gnu: openspecfun: Update to 0.5.3. 
* gnu/packages/maths.scm (openspecfun): Update to 0.5.3.
 2018-01-29 00:23:27 +01:00
Leo Famulari
a4f393b71f
gnu: opencascade-oce: Fix build with glibc 2.26. 
* gnu/packages/patches/opencascade-oce-glibc-2.26.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/maths.scm (opencascade-oce)[source]: Use it.
 2018-01-16 15:24:49 -08:00
Efraim Flashner
23de2e1d5f
Merge remote-tracking branch 'origin/master' into core-updates 2017-12-31 14:10:25 +02:00
Ricardo Wurmus
dc7d6d4ece
gnu: Fix copyright symbol. 
* gnu/packages/maths.scm: Fix copyright line for Dave Love.
 2017-12-24 20:51:48 +01:00
Tobias Geerinckx-Rice
e9960d8cba
gnu, doc: Use HTTPS for cran.r-project.org home pages. 
* gnu/packages/bioinformatics.scm (r-sparql, r-acsnminer, r-gkmsvm)
(r-maldiquant, r-gprofiler)[home-page]: Use HTTPS.
* gnu/packages/cran.scm (r-colorspace, r-auc, r-calibrate, r-shape)
(r-compare, r-proxy, r-sp, r-rmtstat, r-lmtest, r-inline, r-bbmle)
(r-lpsolve, r-energy, r-suppdists, r-ksamples, r-cvst, r-drr, r-prodlim)
(r-ddalpha, r-rcpproll, r-ipred, r-psych, r-truncnorm, r-rsolnp, r-laeken)
(r-vcd, r-ica, r-scatterplot3d)[home-page]: Likewise.
* gnu/packages/machine-learning.scm (r-adaptivesparsity, r-kernlab)
[home-page]: Likewise.
* gnu/packages/maths.scm (r-quadprog, r-pracma)[home-page]: Likewise.
* gnu/packages/statistics.scm (r-boot, r-cluster, r-codetools, r-foreign)
(r-kernsmooth, r-nlme, r-mgcv, r-rpart, r-dichromat, r-estimability)
(r-pheatmap, r-labeling, r-magrittr, r-munsell, r-rcolorbrewer, r-sendmailr)
(r-gdtools, r-acepack, r-formula, r-locfit, r-chron, r-coda, r-backports)
(r-brew, r-commonmark, r-rstudioapi, r-plotrix, r-gridbase, r-bitops)
(r-catools, r-xnomial, r-lambda-r, r-whoreadsthis, r-futile-options)
(r-futile-logger, r-segmented, r-snow, r-iterators, r-foreach, r-doparallel)
(r-domc, r-irlba, r-registry, r-e1071, r-bigmemory-sri, r-r-methodss3)
(r-tidyselect, r-base64, r-runit, r-sfsmisc, r-gtools, r-gdata, r-gplots)
(r-ztable, r-vipor, r-sourcetools, r-statmod, r-compquadform, r-mixtools)
(r-fastica, r-diptest, r-modeltools, r-flexmix, r-deoptimr, r-pcapp)
(r-rrcov, r-fit-models, r-robust, r-trimcluster, r-fpc, r-fnn)
(r-modelmetrics, r-nloptr, r-lme4, r-tclust, r-lubridate)[home-page]:
Likewise.
* gnu/packages/web.scm (r-htmltools, r-hwriter, r-rjson, r-rook)[home-page]:
Likewise.
* doc/guix.texi (Invoking guix import, Invoking guix refresh): Likewise.
 2017-12-24 16:12:13 +01:00
Dave Love
493937ae1f
gnu: openblas: Build with LAPACK. 
* gnu/packages/maths.scm (openblas)[arguments]: Don't disable LAPACK;
add set-extralib phase.
[inputs]: Add fortran-lib.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2017-12-23 20:37:40 +01:00
Leo Famulari
f76fc96866
Merge branch 'master' into core-updates 2017-12-21 13:58:35 -05:00
Efraim Flashner
677bc34d5b
gnu: Remove redundant cmake libdir configure flags. 
* gnu/packages/bioinformatics.scm (imp)[arguments]: Remove
CMAKE_INSTALL_LIBDIR flag.
* gnu/packages/calendar.scm (libical): Same.
* gnu/packages/engineering.scm (kicad): Same.
* gnu/packages/games.scm (openrct2, mgba): Same.
* gnu/packages/gl.scm (virtualgl): Same.
* gnu/packages/image-processing.scm (mia): Same.
* gnu/packages/linux.scm (rdma-core): Same.
* gnu/packages/machine-learning.scm (dlib): Same.
* gnu/packages/maths.scm (lapack, superlu, z3): Same.
* gnu/packages/password-utils.scm (keepassxc): Same.
* gnu/packages/photo.scm (darktable): Same.
* gnu/packages/rdesktop.scm (freerdp): Same.
 2017-12-19 19:52:01 +02:00
Kei Kebreau
a8db968fa4
gnu: wxmaxima: Update to 17.10.1. 
* gnu/packages/maths.scm (wxmaxima): Update to 17.10.1.
 2017-12-19 11:26:16 -05:00
Marius Bakke
32cd878be0
Merge branch 'master' into core-updates 2017-12-19 01:42:40 +01:00
Eric Bavier
6ad0c92df5
gnu: ceres-solver: Update to 1.13.0. 
* gnu/packages/maths.scm (ceres-solver): Update to 1.13.0.
 2017-12-15 07:32:43 -06:00
Efraim Flashner
dec2ade108
gnu: glpk: Update to 4.64. 
* gnu/packages/maths.scm (glpk): Update to 4.64.
 2017-12-09 23:18:33 +02:00
Marius Bakke
77181815ae
Merge branch 'master' into core-updates 2017-12-05 23:41:30 +01:00
Tobias Geerinckx-Rice
440c4273b8
gnu: coda: Update to 2.18.3. 
* gnu/packages/maths.scm (coda): Update to 2.18.3.
 2017-12-04 04:40:14 +01:00
Ricardo Wurmus
05fd8e6b46
gnu: r-pracma: Update to 2.1.1. 
* gnu/packages/maths.scm (r-pracma): Update to 2.1.1.
 2017-11-30 17:28:24 +01:00
Marius Bakke
2dd12924cf
Merge branch 'master' into core-updates 2017-11-19 15:01:00 +01:00
Ludovic Courtès
589e3f4e70
gnu: Move more packages from python to python-web. 
* gnu/packages/python.scm (python-requests, python2-requests)
(python-requests-2.7, python-oauthlib, python2-oauthlib)
(python-furl, python2-furl, python-wsgi-intercept)
(python-publicsuffix, python2-publicsuffix)
(python-publicsuffix2, python2-publicsuffix2): Move to...
* gnu/packages/python-web.scm: ... here.
* gnu/packages/bioinformatics.scm, gnu/packages/finance.scm:
gnu/packages/maths.scm, gnu/packages/terminals.scm,
gnu/packages/video.scm, gnu/packages/virtualization.scm: Adjust
accordingly.
 2017-11-16 08:45:15 +01:00
Ricardo Wurmus
5a80c15c14
gnu: Remove "open source" from descriptions. 
All software in Guix is Free Software.

* gnu/packages/aidc.scm (libdmtx)[description]: Remove "open source" string.
* gnu/packages/firmware.scm (seabios)[description]: Likewise.
* gnu/packages/libupnp.scm (libupnp)[description]: Likewise.
* gnu/packages/maths.scm (cubicle)[description]: Likewise.
* gnu/packages/mingw.scm (mingw-w64)[description]: Likewise.
* gnu/packages/game-development.scm (openmw)[description]: Likewise.
[synopsis]: Remove "Free software".
 2017-11-08 16:21:53 +01:00
Marius Bakke
b4c22f2546
Merge branch 'master' into core-updates 2017-11-02 22:24:24 +01:00
Eric Bavier
a254971350
gnu: units: Add readline input. 
* gnu/packages/maths.scm (units)[inputs]: Add readline.
 2017-11-01 17:17:01 -05:00
Eric Bavier
0498d24866
gnu: units: Add python input. 
* gnu/packages/maths.scm (units)[inputs]: New field.
[arguments]: New field.  Add 'wrap-units_cur phase.
 2017-11-01 17:15:10 -05:00
Eric Bavier
f11d2849a1
gnu: units: Update to 2.16. 
* gnu/packages/maths.scm (units): Update to 2.16.
 2017-11-01 17:11:15 -05:00
Tobias Geerinckx-Rice
b7883b111d
Merge branch 'master' into core-updates 2017-10-25 20:02:08 +02:00
Eric Bavier
24404eaf93
gnu: dealii: Update to 8.5.1. 
Fixes compilation with boost@1.64.0.

* gnu/packages/maths.scm (dealii): Update to 8.5.1.
 2017-10-24 20:16:50 -05:00
Eric Bavier
4150da630f
gnu: p4est: Update to 2.0. 
* gnu/packages/maths.scm (p4est): Update to 2.0.
 2017-10-24 20:16:50 -05:00
Eric Bavier
9ce587f231
gnu: libhilbert: Remove package. 
This package's source and webpage has disappeared for some time, and upstream
projects (e.g. libmesh) seem to be bundling it, so we remove it for now.

* gnu/packages/maths.scm (libhilbert): Remove variable.
 2017-10-24 20:16:49 -05:00
Eric Bavier
958b5a1caa
gnu: slepc: Update to 3.8.0. 
* gnu/packages/maths.scm (slepc): Update to 3.8.0.
 2017-10-24 20:16:49 -05:00
Eric Bavier
6fec298d3e
gnu: petsc: Update to 3.8.0. 
* gnu/packages/maths.scm (petsc): Update to 3.8.0
[native-inputs]: Remove perl, which is no longer needed.
 2017-10-24 20:16:42 -05:00
Thomas Danckaert
8cff2e7aed
Merge 'master' into core-updates 2017-10-16 19:52:30 +02:00
Kei Kebreau
b3b2efc82d
gnu: maxima: Update to 5.41.0. 
* gnu/packages/maths.scm (maxima): Update to 5.41.0.
 2017-10-15 10:50:45 -04:00
Theodoros Foradis
b509efb385
gnu: Add lapack-3.5. 
* gnu/packages/maths.scm (lapack-3.5): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-10-11 11:12:33 +02:00
Marius Bakke
c01ef97594
Merge branch 'master' into core-updates 2017-10-10 22:33:28 +02:00
Marius Bakke
1c055d7258
Merge branch 'staging' 2017-10-10 21:44:32 +02:00
Thomas Danckaert
2fd26d055a
gnu: Add hdf-java. 
* gnu/packages/maths.scm (hdf-java): New variable.
 2017-10-10 10:22:08 +02:00
Marius Bakke
6a317919cf
Merge branch 'master' into staging 2017-10-06 11:03:27 +02:00
Arun Isaac
5ca4fe9696
gnu: octave: Reference makeinfo with absolute path. 
* gnu/packages/maths.scm (octave)[arguments]: Add configure-makeinfo phase.
[inputs]: Add texinfo.
[native-inputs]: Remove texinfo.
 2017-10-06 03:34:59 +05:30
Marius Bakke
7716ccd59c
Merge branch 'master' into staging 2017-10-05 00:45:38 +02:00
Theodoros Foradis
d109b1e85c
Update e-mail for Theodoros Foradis. 
* .mailmap: Add entry.
* gnu/packages/aspell.scm: Replace theodoros.for@openmailbox.org with current address.
* gnu/packages/compression.scm: Likewise.
* gnu/packages/electronics.scm: Likewise.
* gnu/packages/engineering.scm: Likewise.
* gnu/packages/fpga.scm: Likewise.
* gnu/packages/graphviz.scm: Likewise.
* gnu/packages/guile.scm: Likewise.
* gnu/packages/libusb.scm: Likewise.
* gnu/packages/maths.scm: Likewise.
* gnu/packages/messaging.scm: Likewise.
* gnu/packages/uml.scm: Likewise.
* gnu/packages/wxwidgets.scm: Likewise.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-10-03 17:07:54 +02:00
Efraim Flashner
64df08f0cf
Merge remote-tracking branch 'origin/master' into core-updates 2017-10-01 22:16:22 +03:00
Kei Kebreau
dc1d3cdef7
gnu: Use 'modify-phases' syntax. 
* gnu/packages/admin.scm (mingetty, clusterssh, wpa-supplicant-minimal,
wpa-supplicant, wakelan, acpica, tree, direvent, dstat)[arguments]: Use
'modify-phases' syntax.
* gnu/packages/algebra.scm (arb)[arguments]: Likewise.
* gnu/packages/apr.scm (apr-util)[arguments]: Likewise.
* gnu/packages/audio.scm (clalsadrv, fluidsynth, faad2, lv2-mda-piano,
lv2-mda-epiano, timidity++, vamp, soundtouch, portaudio, rsound,
zita-convolver, zita-alsa-pcmi)[arguments]: Likewise.
* gnu/packages/backup.scm (rdup, btar)[arguments]: Likewise.
* gnu/packages/bioinformatics.scm (bedops, bwa, crossmap, express,
flexbar, grit, hisat, ngs-sdk, subread)[arguments]: Likewise.
* gnu/packages/bittorrent.scm (transmission)[arguments]: Likewise.
* gnu/packages/cdrom.scm (cd-discid)[arguments]: Likewise.
* gnu/packages/compression.scm (sharutils)[arguments]: Likewise.
* gnu/packages/conky.scm (conky)[arguments]: Likewise.
* gnu/packages/databases.scm (bdb, bdb-5.3)[arguments]: Likewise.
* gnu/packages/debug.scm (delta, c-reduce)[arguments]: Likewise.
* gnu/packages/display-managers.scm (slim)[arguments]: Likewise.
* gnu/packages/dns.scm (dnsmasq)[arguments]: Likewise.
* gnu/packages/emacs.scm (geiser, emacs-wget, bbdb)[arguments]: Likewise.
* gnu/packages/engineering.scm (pcb)[arguments]: Likewise.
* gnu/packages/firmware.scm (ath9k-htc-firmware)[arguments]: Likewise.
* gnu/packages/flashing-tools.scm (flashrom)[arguments]: Likewise.
* gnu/packages/fltk.scm (fltk)[arguments]: Likewise.
* gnu/packages/freedesktop.scm (python-pyxdg)[arguments]: Likewise.
* gnu/packages/gd.scm (perl-gd)[arguments]: Likewise.
* gnu/packages/gkrellm.scm (gkrellm)[arguments]: Likewise.
* gnu/packages/glib.scm (glibmm)[arguments]: Likewise.
* gnu/packages/gl.scm (glew)[arguments]: Likewise.
* gnu/packages/gnome.scm (icon-naming-utils, orbit2, libbonobo, gnome-vfs,
libgnome, libbonoboui, goffice-0.8, dconf)[arguments]: Likewise.
* gnu/packages/gprolog.scm (gprolog)[arguments]: Likewise.
* gnu/packages/gps.scm (gpscorrelate)[arguments]: Likewise.
* gnu/packages/graphics.scm (agg)[arguments]: Likewise.
* gnu/packages/gtk.scm (ganv, girara, gtksourceview-2, guile-present,
python2-pycairo)[arguments]: Likewise.
* gnu/packages/guile.scm (guile-1.8)[arguments]: Likewise.
* gnu/packages/guile-wm.scm (guile-wm)[arguments]: Likewise.
* gnu/packages/hugs.scm (hugs)[arguments]: Likewise.
* gnu/packages/hurd.scm (gnumach-headers, hurd-headers, hurd-minimal)
[arguments]: Likewise.
* gnu/packages/image-viewers.scm (feh, sxiv)[arguments]: Likewise.
* gnu/packages/libcanberra.scm (libcanberra)[arguments]: Likewise.
* gnu/packages/linux.scm (bridge-utils, iw, fuse, unionfs-fuse/static,
lm-sensors, i2c-tools, xsensors, perf, mdadm, libaio, module-init-tools)
[arguments]: Likewise.
* gnu/packages/lisp.scm (ccl)[arguments]: Likewise.
* gnu/packages/lout.scm (lout)[arguments]: Likewise.
* gnu/packages/lua.scm (luajit)[arguments]: Likewise.
* gnu/packages/machine-learning.scm (shogun)[arguments]: Likewise.
* gnu/packages/mail.scm (exim)[arguments]: Likewise.
* gnu/packages/man.scm (man-pages, txt2man)[arguments]: Likewise.
* gnu/packages/maths.scm (lapack, superlu-dist, openlibm, openspecfun)
[arguments]: Likewise.
* gnu/packages/messaging.scm (bitlbee)[arguments]: Likewise.
* gnu/packages/mp3.scm (libmad, id3lib, mp3info)[arguments]: Likewise.
* gnu/packages/music.scm (solfege)[arguments]: Likewise.
* gnu/packages/noweb.scm (noweb)[arguments]: Likewise.
* gnu/packages/patchutils.scm (patchutils, quilt, colordiff)[arguments]:
Likewise.
* gnu/packages/pdf.scm (xpdf, zathura-cb, zathura-ps, zathura-djvu,
zathura-pdf-poppler, zathura, podofo, fbida)[arguments]: Likewise.
* gnu/packages/perl.scm (perl-file-list, perl-test-harness)[arguments]:
Likewise.
* gnu/packages/photo.scm (gphoto2)[arguments]: Likewise.
* gnu/packages/popt.scm (popt)[arguments]: Likewise.
* gnu/packages/pretty-print.scm (source-highlight, astyle)[arguments]:
Likewise.
* gnu/packages/pumpio.scm (pumpa)[arguments]: Likewise.
* gnu/packages/python.scm (python-passlib, python-pycrypto, python2-empy,
python-sqlalchemy, python-docopt)[arguments]: Likewise.
* gnu/packages/rdf.scm (lrdf)[arguments]: Likewise.
* gnu/packages/regex.scm (tre)[arguments]: Likewise.
* gnu/packages/rrdtool.scm (rrdtool)[arguments]: Likewise.
* gnu/packages/ruby.scm (ruby-2.1, ruby-1.8)[arguments]: Likewise.
* gnu/packages/sawfish.scm (sawfish)[arguments]: Likewise.
* gnu/packages/scheme.scm (racket)[arguments]: Likewise.
* gnu/packages/sdl.scm (guile-sdl)[arguments]: Likewise.
* gnu/packages/serveez.scm (serveez)[arguments]: Likewise.
* gnu/packages/skribilo.scm (skribilo)[arguments]: Likewise.
* gnu/packages/smalltalk.scm (smalltalk)[arguments]: Likewise.
* gnu/packages/suckless.scm (dmenu, slock)[arguments]: Likewise.
* gnu/packages/tcl.scm (expect)[arguments]: Likewise.
* gnu/packages/telephony.scm (commoncpp)[arguments]: Likewise.
* gnu/packages/textutils.scm (recode, libgtextutils)[arguments]:
Likewise.
* gnu/packages/time.scm (time)[arguments]: Likewise.
* gnu/packages/tor.scm (privoxy)[arguments]: Likewise.
* gnu/packages/uucp.scm (uucp)[arguments]: Likewise.
* gnu/packages/video.scm (libdvdnav-4)[arguments]: Likewise.
* gnu/packages/web-browsers.scm (lynx)[arguments]: Likewise.
* gnu/packages/web.scm (tinyproxy)[arguments]: Likewise.
* gnu/packages/wicd.scm (wicd)[arguments]: Likewise.
* gnu/packages/wm.scm (bspwm)[arguments]: Likewise.
* gnu/packages/xdisorg.scm (sxhkd, xcape)[arguments]: Likewise.
* gnu/packages/xfce.scm (xfconf)[arguments]: Likewise.
* gnu/packages/xfig.scm (transfig)[arguments]: Likewise.
* gnu/packages/xorg.scm (imake)[arguments]: Likewise.
 2017-09-20 20:58:04 -04:00
Ludovic Courtès
5a7deb1174
gnu: Add BLIS. 
* gnu/packages/maths.scm (make-blis): New procedure.
(blis, ignorance): New variables.
(blis/x86_64): New macro.
(blis-sandybridge, blis-haswell, blis-knl): New variables.
 2017-09-07 15:38:56 +02:00
Paul Garlick
c4d4a77923
gnu: pt-scotch32: use keyword arguments from "scotch32" 
*gnu/packages/maths.scm (pt-scotch32) [arguments]: substitute keyword
arguments from "scotch32" package, ensuring that the INTSIZE32 macro is
set

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-09-04 15:24:04 +02:00
Thomas Danckaert
43d01672a1
gnu: netcdf: Fix reproducibility issue; remove unneeded references. 
* gnu/packages/maths.scm (netcdf) [arguments]: Add phase to fix the embedded
  'Configured On' date; truncate reference to compiler store item.
 2017-09-01 08:34:32 +02:00