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* monads, doc: Improve mwhen and munless documentation.Chris Marusich2017-04-08
| | | | | | | * doc/guix.texi (The Store Monad) <mwhen, munless>: Document them. * guix/monads.scm (mwhen, munless): Clarify their intended use. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* monads: Use intent-revealing parameter names.Chris Marusich2017-04-08
| | | | | | | | * guix/monads.scm (mwhen, munless): Rename parameters from 'exp0' and 'exp' to 'mexp0' and 'mexp', respectively. This makes it more obvious that these expressions must be monadic expressions. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: r-vegan: Update to 2.4-3.Ricardo Wurmus2017-04-08
| | | | | | * gnu/packages/bioinformatics.scm (r-vegan): Update to 2.4-3. [arguments]: Remove build phase "revert-test-deletion". [native-inputs]: Remove "r-vegan-delete-tests-patch".
* gnu: r-stringi: Update to 1.1.5.Ricardo Wurmus2017-04-08
| | | | * gnu/packages/statistics.scm (r-stringi): Update to 1.1.5.
* gnu: khal: Update to 0.9.5.Leo Famulari2017-04-07
| | | | * gnu/packages/calendar.scm (khal): Update to 0.9.5.
* vm: Add missing module.Mathieu Othacehe2017-04-07
| | | | | | | | | | | | | | | | | | | * gnu/build/vm.scm (define-module): Use module (guix build syscalls). It fixes the following warnings during guix build : gnu/build/vm.scm:233:3: warning: possibly unbound variable `mount' gnu/build/vm.scm:238:3: warning: possibly unbound variable `umount' gnu/build/vm.scm:268:8: warning: possibly unbound variable `mount' gnu/build/vm.scm:276:8: warning: possibly unbound variable `umount' gnu/build/vm.scm:315:4: warning: possibly unbound variable `mount' gnu/build/vm.scm:323:4: warning: possibly unbound variable `umount' This was not possible until the previous commit because we had to be sure that Guile core implementation of 'mount' and 'umount' was used in initrd context. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* syscalls: Allow mount and umount use from static Guile.Mathieu Othacehe2017-04-07
| | | | | | | | | | * guix/build/syscalls.scm (mount): Use Guile core mount if called from static Guile, otherwise use FFI based mount implementation. (umount): Ditto. This allows to use (guix build syscalls) from a module independently of calling context. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: dovecot-trees: Update to 2.1.0.ng02017-04-07
| | | | | | | * gnu/packages/mail.scm (dovecot-trees): Update to 2.1.0. (source): Change to use 'url-fetch'. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* build: Include 'glibc-utf8-locales' in the binary tarball.Ludovic Courtès2017-04-07
| | | | | | * Makefile.am (guix-binary.%.tar.xz): Add 'glibc-utf8-locales' and 'glibc-final' to the 'guix pack' command line. * doc/guix.texi (Binary Installation): Mention 'etc/profile'.
* profiles: Slightly improve the instructions in 'etc/profile'.Ludovic Courtès2017-04-07
| | | | | * guix/build/profiles.scm (build-etc/profile): Fix typo in comment. Add backslash in the generated shell comment.
* pack: Add '--expression'.Ludovic Courtès2017-04-07
| | | | | | | * guix/scripts/pack.scm (%options, show-help): Add '--expression'. (guix-pack)[maybe-package-argument]: New procedure. Use it, and remove variable 'specs'. * doc/guix.texi (Invoking guix pack): Document '--expression'.
* gnu: Add intel-gpu-tools.Ricardo Wurmus2017-04-07
| | | | * gnu/packages/admin.scm (intel-gpu-tools): New variable.
* gnu: emacs-symon: Update to 20160630.Vasile Dumitrascu2017-04-07
| | | | | | | | | * gnu/packagages/emacs.scm (emacs-symon): Update to 20160630 (this is the latest tag available from the upstream). [source]: Use github instead of melpa. [home-page]: Update. Signed-off-by: Alex Kost <alezost@gmail.com>
* gnu: Add emacs-adaptive-wrap.humanitiesNerd2017-04-07
| | | | | | | | | Suggested-by Ivan Vilata i Balaguer <ivan@selidor.net>. Fixes <https://bugs.gnu.org/26367>. * gnu/packages/emacs.scm (emacs-adaptive-wrap): New variable. Signed-off-by: Alex Kost <alezost@gmail.com>
* gnu: emacs-debbugs: Update to 0.14.Alex Kost2017-04-07
| | | | * gnu/packages/emacs.scm (emacs-debbugs): Update to 0.14.
* gnu: perf: Add support for C++ symbol demangling.Ludovic Courtès2017-04-07
| | | | * gnu/packages/linux.scm (perf)[inputs]: Add libiberty.
* gnu: ratpoison: Update to 1.4.9.Mathieu Othacehe2017-04-07
| | | | | | | * gnu/packages/ratpoison.scm (ratpoison): Update to 1.4.9. [inputs]: Remove libxinerama. Add libxrandr. Signed-off-by: Leo Famulari <leo@famulari.name>
* gnu: guitarix: Disable webkit features.Leo Famulari2017-04-07
| | | | | | | The only version of webkit supported by guitarix is unmaintained and contains a large number of security vulnerabilities, and should be removed from Guix. * gnu/packages/audio.scm (guitarix)[inputs]: Remove webkitgtk/gtk+-2.
* gnu: myrepos: Use 'modify-phases' syntax.Efraim Flashner2017-04-07
| | | | | * gnu/packages/version-control.scm (myrepos)[arguments]: Use 'modify-phases' syntax.
* gnu: myrepos: Update to 1.20170129.Efraim Flashner2017-04-07
| | | | | | | * gnu/packages/version-control.scm (myrepos): Update to 1.20170129. [source]: Source tarballs have been removed from Github, use git-download to download from upstream repository. [home-page]: Use https.
* gnu: gnubik: Update to 2.4.3.Efraim Flashner2017-04-07
| | | | * gnu/packages/games.scm (gnubik): Update to 2.4.3.
* gnu: vsearch: Update to 2.4.3.Ben Woodcroft2017-04-07
| | | | * gnu/packages/bioinformatics.scm (vsearch): Update to 2.4.3.
* gnu: qemu: Update to 2.8.1 [security fixes].Leo Famulari2017-04-07
| | | | | | | | | | | | Fixes CVE-2016-{9602,9603} and CVE-2017-{2615,2620,2630,5667,5931}. * gnu/packages/qemu.scm (qemu): Update to 2.8.1. * gnu/packages/patches/qemu-CVE-2017-2615.patch, gnu/packages/patches/qemu-CVE-2017-2620.patch, gnu/packages/patches/qemu-CVE-2017-2630.patch, gnu/packages/patches/qemu-CVE-2017-5667.patch, gnu/packages/patches/qemu-CVE-2017-5931.patch: Delete files. * gnu/local.mk (dist_patch_DATA): Remove them.
* gnu: surf: Update to 2.0.Leo Famulari2017-04-06
| | | | | * gnu/packages/suckless.scm (surf): Update to 2.0. [inputs]: Replace webkitgtk/gtk+-2 with webkitgtk.
* size: Add test to multiple 'store-profile' arguments.Ludovic Courtès2017-04-07
| | | | * tests/size.scm ("store-profile with multiple items"): New test.
* size: Avoid '_' as a pattern variable in 'match'.Ludovic Courtès2017-04-07
| | | | | * guix/scripts/size.scm (display-profile, profile->page-map): Don't use '_' as a 'match' pattern variable.
* gnu: flann: Move .mex file to a separate "octave" output.Ludovic Courtès2017-04-07
| | | | | | | | That way the closure of flann:out is down from 1 GiB to 290 MiB. * gnu/packages/maths.scm (flann)[outputs]: New field. [arguments]: Add 'set-octave-directory' phase.
* gnu: webkitgtk: Update to 2.16.1.Leo Famulari2017-04-06
| | | | * gnu/packages/webkit.scm (webkitgtk): Update to 2.16.1.
* gnu: armadillo: Change license to ASL 2.0.Ricardo Wurmus2017-04-06
| | | | | | | Armadillo versions 7.800 and onwards are licensed under the Apache License 2.0. * gnu/packages/maths.scm (armadillo)[license]: Change to ASL 2.0.
* gnu: re2: Update to 2017-04-01.Marius Bakke2017-04-06
| | | | * gnu/packages/regex.scm (re2): Update to 2017-04-01.
* gnu: feh: Update to 2.18.3.Marius Bakke2017-04-06
| | | | * gnu/packages/image-viewers.scm (feh): Update to 2.18.3.
* gnu: libusb: Update to 1.0.21.Marius Bakke2017-04-06
| | | | | * gnu/packages/libusb.scm (libusb): Update to 1.0.21. [home-page]: Update to new URL.
* gnu: libmtp: Update to 1.1.13 [security fixes].Marius Bakke2017-04-06
| | | | * gnu/packages/libusb.scm (libmtp): Update to 1.1.13.
* gnu: r-sourcetools: Update to 0.1.6.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/statistics.scm (r-sourcetools): Update to 0.1.6.
* gnu: r-seqinr: Update to 3.3-6.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/bioinformatics.scm (r-seqinr): Update to 3.3-6.
* gnu: Remove armadillo-for-rcpparmadillo.Ricardo Wurmus2017-04-06
| | | | | | | | This package is no longer useful, because upstream does not keep the tarballs of older releases. We use the bundled armadillo sources in the r-rccparmadillo package instead. * gnu/packages/maths.scm (armadillo-for-rcpparmadillo): Remove variable.
* gnu: r-rcpparmadillo: Update to 0.7.700.0.0.Ricardo Wurmus2017-04-06
| | | | | | | | | | | * gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.7.700.0.0. [source]: Do not delete bundled armadillo sources, because upstream no longer hosts previous versions. [propagated-inputs]: Remove "armadillo-for-rcpparmadillo". [arguments]: Remove because we no longer need to link with the armadillo library. * gnu/packages/bioinformatics.scm (r-deseq2)[arguments]: Remove because we no longer need to link with armadillo library.
* gnu: armadillo: Update to 7.800.2.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/maths.scm (armadillo): Update to 7.800.2.
* gnu: r-annotationforge: Update to 1.16.1.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.16.1.
* gnu: r-shortread: Update to 1.32.1.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/bioinformatics.scm (r-shortread): Update to 1.32.1.
* gnu: r-s4vectors: Update to 0.12.2.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.12.2.
* gnu: r-iranges: Update to 2.8.2.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/bioinformatics.scm (r-iranges): Update to 2.8.2.
* gnu: r-variantannotation: Update to 1.20.3.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.20.3.
* gnu: r-limma: Update to 3.30.13.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/bioinformatics.scm (r-limma): Update to 3.30.13.
* gnu: r-genomicranges: Update to 1.26.4.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.26.4.
* gnu: r-annotationdbi: Update to 1.36.2.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.36.2.
* gnu: r-genomicalignments: Update to 1.10.1.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.10.1.
* gnu: r-rtracklayer: Update to 1.34.2.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.34.2.
* gnu: r-genomicfeatures: Update to 1.26.4.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.26.4.
* gnu: r-seqminer: Update to 5.7.Ricardo Wurmus2017-04-06
| | | | * gnu/packages/bioinformatics.scm (r-seqminer): Update to 5.7.
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