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* Merge branch 'master' into stagingMarius Bakke2017-10-06
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| * gnu: octave: Reference makeinfo with absolute path.Arun Isaac2017-10-06
| | | | | | | | | | | | * gnu/packages/maths.scm (octave)[arguments]: Add configure-makeinfo phase. [inputs]: Add texinfo. [native-inputs]: Remove texinfo.
* | Merge branch 'master' into stagingMarius Bakke2017-10-05
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| * Update e-mail for Theodoros Foradis.Theodoros Foradis2017-10-03
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * .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>
* | gnu: Use 'modify-phases' syntax.Kei Kebreau2017-09-20
|/ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * 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.
* gnu: Add BLIS.Ludovic Courtès2017-09-07
| | | | | | | * 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.
* gnu: pt-scotch32: use keyword arguments from "scotch32"Paul Garlick2017-09-04
| | | | | | | | *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>
* gnu: netcdf: Fix reproducibility issue; remove unneeded references.Thomas Danckaert2017-09-01
| | | | | * gnu/packages/maths.scm (netcdf) [arguments]: Add phase to fix the embedded 'Configured On' date; truncate reference to compiler store item.
* gnu: hdf4: Avoid unneeded store references to compilers.Thomas Danckaert2017-09-01
| | | | | * gnu/packages/maths.scm (hdf4) [arguments]: Add phase 'patch-settings to truncate hashes of compiler store items.
* gnu: hdf5: Avoid unneeded store references to compilers.Thomas Danckaert2017-09-01
| | | | | * gnu/packages/maths.scm (hdf5) [arguments]: Add phase to patch "libhdf5.settings", removing references to the C/C++/Fortran compilers.
* gnu: hdf5: Add output for fortran interface.Thomas Danckaert2017-09-01
| | | | | | | | * gnu/packages/maths.scm (hdf5) [native-inputs]: Add gfortran. [outputs]: Add "fortran". [arguments]: Enable Fortran compilation; add "/lib" directory of the fortran output to the runpath of the Fortran libs; add a 'split phase to move all Fortran-related files to the the Fortran output store location.
* gnu: Add pt-scotch32.Paul Garlick2017-08-31
| | | | | | * gnu/packages/maths.scm (pt-scotch32): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add "scotch32".Paul Garlick2017-08-31
| | | | | | * gnu/packages/maths.scm (scotch32): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: coda: Update to 2.18.2.Thomas Danckaert2017-08-30
| | | | * gnu/packages/maths.scm (coda): Update to 2.18.2.
* Update e-mail for Kei Kebreau.Kei Kebreau2017-08-29
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * .mailmap: Map kei@openmailbox.org to current address. * gnu/local.mk: Replace kei@openmailbox.org to current address. * gnu/packages/backup.scm: Likewise. * gnu/packages/calendar.scm: Likewise. * gnu/packages/check.scm: Likewise. * gnu/packages/compression.scm: Likewise. * gnu/packages/documentation.scm: Likewise. * gnu/packages/emacs.scm: Likewise. * gnu/packages/fltk.scm: Likewise. * gnu/packages/freedesktop.scm: Likewise. * gnu/packages/game-development.scm: Likewise. * gnu/packages/games.scm: Likewise. * gnu/packages/gnome.scm: Likewise. * gnu/packages/gnustep.scm: Likewise. * gnu/packages/gtk.scm: Likewise. * gnu/packages/hexedit.scm: Likewise. * gnu/packages/image.scm: Likewise. * gnu/packages/maths.scm: Likewise. * gnu/packages/music.scm: Likewise. * gnu/packages/xfce.scm: Likewise. * gnu/packages/python.scm: Likewise. * gnu/packages/tcl.scm: Likewise. * gnu/packages/textutils.scm: Likewise. * gnu/packages/video.scm: Likewise. * gnu/packages/w3m.scm: Likewise. * gnu/packages/web.scm: Likewise. * gnu/packages/web-browsers.scm: Likewise. * gnu/packages/patches/wmfire-update-for-new-gdk-versions.patch: Likewise.
* Merge branch 'core-updates'Marius Bakke2017-08-26
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| * Merge branch 'master' into core-updatesMarius Bakke2017-08-21
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| * \ Merge branch 'master' into core-updatesMark H Weaver2017-08-15
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| * \ \ Merge branch 'master' into core-updatesMark H Weaver2017-08-09
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| * \ \ \ Merge branch 'master' into core-updatesMark H Weaver2017-08-07
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| * \ \ \ \ Merge branch 'master' into core-updatesMark H Weaver2017-08-06
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| * \ \ \ \ \ Merge branch 'master' into core-updatesMarius Bakke2017-08-01
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| * \ \ \ \ \ \ Merge branch 'master' into core-updatesMarius Bakke2017-07-28
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| * \ \ \ \ \ \ \ Merge branch 'master' into core-updatesLeo Famulari2017-07-23
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| * \ \ \ \ \ \ \ \ Merge branch 'master' into core-updatesLeo Famulari2017-07-10
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| * \ \ \ \ \ \ \ \ \ Merge branch 'master' into core-updatesLeo Famulari2017-06-29
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| * \ \ \ \ \ \ \ \ \ \ Merge branch 'master' into core-updatesMark H Weaver2017-06-26
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| * \ \ \ \ \ \ \ \ \ \ \ Merge branch 'master' into core-updatesMark H Weaver2017-06-20
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| * \ \ \ \ \ \ \ \ \ \ \ \ Merge branch 'master' into core-updatesLeo Famulari2017-06-07
| |\ \ \ \ \ \ \ \ \ \ \ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This merge commit includes a fix for CVE-2017-6512 in Perl 5.26.0.
| * \ \ \ \ \ \ \ \ \ \ \ \ \ Merge branch 'master' into core-updatesRicardo Wurmus2017-05-24
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| * | | | | | | | | | | | | | | gnu: flex-2.6.1: Remove variable.Leo Famulari2017-05-15
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/flex.scm (flex-2.6.1): Remove variable. * gnu/packages/bootloaders.scm (grub, dtc): Use flex instead of flex-2.6.1. * gnu/packages/embedded.scm (propeller-binutils, binutils-vc4): Likewise. * gnu/packages/maths.scm (scotch): Likewise. * gnu/packages/wine.scm (wine): Likewise.
* | | | | | | | | | | | | | | | gnu: z3: Build Python bindings.Theodoros Foradis2017-08-21
| |_|_|_|_|_|_|_|_|_|_|_|_|_|/ |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (z3): Add python bindings. [build-system]: Change to cmake-build-system. [arguments]: Remove "changedir" phase. Add "bootstrap" and "make-test-z3" phases; replace the "check" phase. Add #:configure-flags. Remove #:test-target. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* | | | | | | | | | | | | | | gnu: hdf4: Fix building on aarch64.Efraim Flashner2017-08-16
| |_|_|_|_|_|_|_|_|_|_|_|_|/ |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (hdf4)[arguments]: Add a phase to improve detection and support for aarch64-linux.
* | | | | | | | | | | | | | gnu: wxmaxima: Update to 17.05.1.Kei Kebreau2017-08-13
| |_|_|_|_|_|_|_|_|_|_|_|/ |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (wxmaxima): Update to 17.05.1. [arguments]: Put "autoconf" phase after the "unpack" phase. Fix indentation.
* | | | | | | | | | | | | gnu: dealii: Update to 8.5.0.Eric Bavier2017-08-09
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (dealii): Update to 8.5.0. [arguments]: Delete 'hint-example-prefix phase, which would need adjusting for this version. Users can use e.g. 'export DEAL_II_DIR=$GUIX_ENVIRONMENT'. Adjust configuration flags.
* | | | | | | | | | | | | gnu: suitesparse: Update to 4.5.5.Eric Bavier2017-08-09
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (suitesparse): Update to 4.5.5. [source]: Add 'modules' and 'snippet' field to remove bundled source. [arguments]: Remove 'prepare-out' phase. Adjust #:make-flags for metis. Make build parallel, since it now appears to be safe. [inputs]: Add metis.
* | | | | | | | | | | | | gnu: suitesparse: Use modify-phases.Eric Bavier2017-08-09
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (suitesparse)[arguments]: Use modify-phases.
* | | | | | | | | | | | | gnu: petsc, slepc: Use 'parallel-job-count'.Eric Bavier2017-08-09
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (petsc, slepc)[arguments]: Set #:make-flags to override default unlimited '-j'. (petsc)[arguments]: Scrub build machine cores from installed files in 'clean-local-references' phase.
* | | | | | | | | | | | | gnu: slepc: Update to 3.7.4.Eric Bavier2017-08-09
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (slepc): Update to 3.7.4. [source]: Use direct source link. Remove 'file-name' field.
* | | | | | | | | | | | | gnu: petsc: Update to 3.7.6.Eric Bavier2017-08-09
| |_|_|_|_|_|_|_|_|_|_|/ |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (petsc): Update to 3.7.6.
* | | | | | | | | | | | gnu: cubicle: Fix evaluation.Marius Bakke2017-08-07
| |_|_|_|_|_|_|_|_|_|/ |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (cubicle)[native-inputs]: Retrieve WHICH from (gnu packages base).
* | | | | | | | | | | gnu: Add cubicle.Julien Lepiller2017-08-05
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (cubicle): New variable.
* | | | | | | | | | | gnu: r-pracma: Update to 2.0.7.Ricardo Wurmus2017-08-03
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (r-pracma): Update to 2.0.7.
* | | | | | | | | | | gnu: vc: Limit to x86_64 and i686.Efraim Flashner2017-08-03
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (vc)[supported-systems]: New field.
* | | | | | | | | | | gnu: hdf4: Update to 4.12.13.Thomas Danckaert2017-08-02
| |_|_|_|_|_|_|_|_|/ |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (hdf4): Update to 4.12.13.
* | | | | | | | | | gnu: Add z3.Theodoros Foradis2017-07-29
| |_|_|_|_|_|_|_|/ |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (z3): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* | | | | | | | | gnu: glpk: Update to 4.63.Efraim Flashner2017-07-26
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (glpk): Update to 4.63.
* | | | | | | | | gnu: maxima: Ensure binutils are available at runtime.Kei Kebreau2017-07-25
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/packages/maths.scm (maxima)[arguments]: Use modify-phases syntax. Modify 'post-install' phase.
* | | | | | | | | Revert "gnu: maxima: Ensure gcc is available at runtime."Kei Kebreau2017-07-25
| |_|_|_|_|_|_|/ |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This reverts commit f2fa86cc82b5941bde63b666337eea59aa609e55. Commit 5ea8dbf0c906d51779ba0cf775ec9967f5f42382 fixes the underlying issue in GNU Common Lisp.
* | | | | | | | gnu: lapack: Fix hash of release 3.7.1Maxim Cournoyer2017-07-20
| |_|_|_|_|_|/ |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Apparently the release was modified (cleaned-up) in-place. An issue was opened at https://github.com/Reference-LAPACK/lapack-release/issues/4. * gnu/packages/maths.scm (lapack): Fix sha256 hash. Signed-off-by: Marius Bakke <mbakke@fastmail.com>
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