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Author SHA1 Message Date
Marius Bakke dc4851093c
gnu: libraw: Update to 0.19.1. 
* gnu/packages/photo.scm (libraw): Update to 0.19.1.
 2018-11-24 01:50:43 +01:00
Marius Bakke 43bcf392a7
gnu: libtorrent-rasterbar: Update to 1.1.11. 
* gnu/packages/bittorrent.scm (libtorrent-rasterbar): Update to 1.1.11.
 2018-11-24 01:50:43 +01:00
Nam Nguyen c2be790fb1
gnu: Add deluge. 
* gnu/packages/bittorrent.scm (deluge): New variable.

Co-authored-by: Mike Rosset <mike.rosset@gmail.com>
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-24 01:50:43 +01:00
Nam Nguyen 39da44c2c0
gnu: libtorrent-rasterbar: Compile Python bindings in C++11 mode. 
* gnu/packages/bittorrent.scm (libtorrent-rasterbar)[arguments]: Add phase to
  substitute setup.py.

Co-authored-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-24 01:50:43 +01:00
Nam Nguyen 8afe166dd7
gnu: Add python-service-identity. 
* gnu/packages/python-crypto.scm (python-service-identity,
  python2-service-identity): New variables.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-24 01:50:42 +01:00
Nicolas Goaziou f12f70b1f2
gnu: Add emacs-matrix-client. 
* gnu/packages/emacs.scm (emacs-matrix-client): New variable.
 2018-11-23 21:43:15 +01:00
Nicolas Goaziou d4f7b7e127
gnu: Add emacs-a. 
* gnu/packages/emacs.scm (emacs-a): New variable.
 2018-11-23 21:43:15 +01:00
Nicolas Goaziou 8fc78612b5
gnu: Add emacs-tracking. 
* gnu/packages/emacs.scm (emacs-tracking): New variable.
 2018-11-23 21:43:14 +01:00
Nicolas Goaziou 87470116e6
gnu: Add emacs-ov. 
* gnu/packages/emacs.scm (emacs-ov): New variable.
 2018-11-23 21:43:14 +01:00
Paul Garlick 57d30004e5
gnu: python-slepc4py: Update to 3.10.0. 
* gnu/packages/maths.scm (python-slepc4py): Update to 3.10.0.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-23 20:27:15 +01:00
Paul Garlick cd3681a237
gnu: python-petsc4py: Update to 3.10.0. 
* gnu/packages/maths.scm (python-petsc4py): Update to 3.10.0.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-23 20:27:15 +01:00
Paul Garlick e93da160ca
gnu: slepc: Update to 3.10.1. 
* gnu/packages/maths.scm (slepc): Update to 3.10.1.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-23 20:27:15 +01:00
Paul Garlick e6951e4ee0
gnu: petsc: Update to 3.10.2 
* gnu/packages/maths.scm (petsc): Update to 3.10.2.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-23 20:27:15 +01:00
Luther Thompson dc240b6aa5
gnu: python-ilinkedlist: Update to 0.4.0. 
* gnu/packages/python.scm (python-ilinkedlist): Update to 0.4.0.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-23 20:17:23 +01:00
Alex Vong 332443d429
gnu: emacs-picpocket: Update to 40. 
Fix version string as well:
<https://lists.gnu.org/archive/html/guix-devel/2018-11/msg00286.html>.

* gnu/packages/emacs.scm (emacs-picpocket): Update to 40.
 2018-11-23 22:37:12 +08:00
Rutger Helling a605e3c68c
gnu: xpra: Update to 2.4.2. 
* gnu/packages/xorg.scm (xpra): Update to 2.4.2.
 2018-11-23 13:59:36 +01:00
Vagrant Cascadian 74e35e8c94
gnu: Add u-boot-pinebook. 
* gnu/packages/patches/u-boot-pinebook-a64-update-dts.patch: New file.
* gnu/packages/patches/u-boot-pinebook-syscon-node.patch: New file.
* gnu/packages/patches/u-boot-pinebook-mmc-calibration.patch: New file.
* gnu/packages/patches/u-boot-pinebook-video-bridge.patch: New file.
* gnu/packages/patches/u-boot-pinebook-r_i2c-controller.patch: New file.
* gnu/packages/patches/u-boot-pinebook-dts.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/bootloaders.scm (u-boot-pinebook): New exported variable.
* gnu/bootloader/u-boot.scm (u-boot-pinebook-bootloader): New exported
variable.
* gnu/system/install.scm (pinebook-installation-os): New exported variable.
 2018-11-22 21:59:05 +01:00
Pierre Neidhardt eff8e0b4d9
gnu: ccl: Fix missing command line argument support in wrapper. 
* gnu/packages/lisp.scm (ccl): Fix missing command line argument support in wrapper.
 2018-11-22 19:40:03 +01:00
Arun Isaac e3a2dd5559
gnu: gajim: Rename wrap-program phases. 
* gnu/packages/messaging.scm (gajim)[arguments]: Rename wrap-program phases to
wrap-gi-typelib-path and wrap-gsettings-schema-dir.
 2018-11-22 22:49:56 +05:30
Nicolas Goaziou 561e3c1d0d
gnu: supercollider: Update to 3.9.3. 
* gnu/packages/audio.scm (supercollider): Update to 3.9.3.
 2018-11-22 13:00:15 +01:00
Nicolas Goaziou af90cc45ae
gnu: giac-xcas: Add a "doc" output 
* gnu/packages/algebra.scm (giac-xcas): Add "doc" output.
[arguments]: Add phase to install documentation in the appropriate directory.
 2018-11-22 12:18:52 +01:00
Nicolas Goaziou 90d5ec55ae
gnu: giac-xcas: Update to 1.5.0-19. 
* gnu/packages/algebra.scm (giac-xcas): Update to 1.5.0-19.
 2018-11-22 12:18:43 +01:00
Pierre Neidhardt 910ac0effe
gnu: ccl: Properly include x86-headers and remove missing "contrib" folder. 
* gnu/packages/lisp.scm (ccl): Include x86-headers and remove missing "contrib" folder.
[home-page]: Use HTTPS.
 2018-11-22 11:43:17 +01:00
Marius Bakke d9f8e846b6
gnu: mbedtls-apache: Update to 2.14.0. 
* gnu/packages/tls.scm (mbedtls-apache): Update to 2.14.0.
 2018-11-21 23:06:08 +01:00
Marius Bakke b344a3a937
gnu: termite: Update to 14. 
* gnu/packages/terminals.scm (termite): Update to 14.
 2018-11-21 23:01:38 +01:00
Marius Bakke b069c30b52
gnu: vte-ng: Update to 0.54.2.a. 
* gnu/packages/gnome.scm (vte-ng): Update to 0.54.2.a.
 2018-11-21 22:59:27 +01:00
Marius Bakke 6bc00737b0
gnu: vte-ng: Fetch source using git. 
* gnu/packages/gnome.scm (vte-ng)[source]: Rewrite in terms of GIT-FETCH.
 2018-11-21 22:57:48 +01:00
Marius Bakke afd90f8d62
gnu: vte-ng: Add a home page. 
* gnu/packages/gnome.scm (vte-ng)[home-page]: New field.
 2018-11-21 22:57:14 +01:00
Marius Bakke b96386501f
gnu: python-numpy: Update to 1.14.6. 
* gnu/packages/python.scm (python-numpy): Update to 1.14.6.
 2018-11-21 22:42:25 +01:00
Marius Bakke da15325e36
gnu: webkitgtk: Update to 2.22.4. 
* gnu/packages/webkit.scm (webkitgtk-2.22): Update to 2.22.4.
 2018-11-21 22:24:51 +01:00
Marius Bakke dca7d8a25c
gnu: git: Update to 2.19.2. 
* gnu/packages/version-control.scm (git): Update to 2.19.2.
 2018-11-21 22:24:35 +01:00
Marius Bakke aa9eb25983
gnu: feh: Update to 3.1. 
* gnu/packages/image-viewers.scm (feh): Update to 3.1.
 2018-11-21 22:23:47 +01:00
Alex Vong f9e5caf9ba
gnu: teeworlds: Update to 0.7.0 [fixes CVE-2018-18541]. 
* gnu/packages/games.scm (teeworlds): Update to 0.7.0.
[source]: Switch to git-fetch. Remove all bundled libraries except md5.
[arguments]: Adjust accordingly.
[inputs]: Use sdl2 instead of sdl and python-wrapper instead of python-2.
Add json-parser and pnglite.
* gnu/packages/patches/teeworlds-use-latest-wavpack.patch: Update it.
 2018-11-22 03:21:29 +08:00
Alex Vong 53367e17b6
gnu: bam: Update to 0.5.1. 
* gnu/packages/build-tools.scm (bam): Update to 0.5.1.
[source]: Switch to git-fetch.
[arguments]: Use newly provided Makefile.
[inputs]: Add lua.
 2018-11-22 03:21:05 +08:00
Alex Vong 078e2edf1d
gnu: Add json-parser. 
* gnu/packages/web.scm (json-parser): New variable.
 2018-11-22 03:20:49 +08:00
Alex Vong 6e35bad0a9
gnu: Add pnglite. 
* gnu/packages/image.scm (pnglite): New variable.
 2018-11-22 03:20:11 +08:00
Efraim Flashner a2aa746cfe
gnu: python-waf: Use a proper directory structure. 
Fixes <https://bugs.gnu.org/25634>.

* gnu/packages/python.scm (python-waf): Replace custom 'install phase to
install "waf" binary into the bin directory. Remove the 'wrap phase.
* gnu/packages/video.scm (mpv)[arguments]: Adjust the 'setup-waf phase
accordingly.
 2018-11-21 15:20:20 +02:00
Jan Nieuwenhuizen 96cae1b48c
gnu: font-ubuntu: Update url. 
* gnu/packages/fonts.scm (font-ubuntu): Use new url, update hash.
 2018-11-21 14:06:07 +01:00
swedebugia ab5d91dd50
gnu: Add python-wikidata. 
* gnu/packages/python.scm (python-wikidata): New variable.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-21 11:55:57 +01:00
Efraim Flashner 1200783972
gnu: thermald: Clean up package definition. 
* gnu/packages/admin.scm (thermald)[arguments]: Remove redundant
'bootstrap phase. Remove unnecessary udev configure flag.
 2018-11-21 10:13:07 +02:00
Efraim Flashner d09e84c271
gnu: thermald: Don't use unstable tarball. 
* gnu/packages/admin.scm (thermald)[source]: Download source using
git-fetch.
 2018-11-21 10:13:06 +02:00
Maxim Cournoyer 56ddcf0414
gnu: emacs-elpy: Update to 1.26.0. 
* gnu/packages/emacs.scm (emacs-elpy): Update to 1.26.0.
 2018-11-20 23:57:58 -05:00
Vagrant Cascadian 0da3526d58
gnu: u-boot-pine64-plus: Refactor package definition. 
* gnu/packages/bootloaders.scm (make-u-boot-sunxi64-package): New procedure.
(u-boot-pine64-plus): Use it.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2018-11-20 23:39:41 +01:00
Vagrant Cascadian 95d9198606
gnu: arm-trusted-firmware-pine64-plus: Rename variable to arm-trusted-firmware-sun50i-a64. 
* gnu/packages/firmware (arm-trusted-firmware-pine64-plus): Rename to...
(arm-trusted-firmware-sun50i-a64): ...this.
* gnu/packages/bootloaders (u-boot-pine64-plus)[native-inputs]: Use it.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2018-11-20 23:34:31 +01:00
Vagrant Cascadian 725b077e40
gnu: arm-trusted-firmware-pine64-plus: Update to 2.0-1.cabe0a3. 
* gnu/packages/firmware.scm (arm-trusted-firmware-pine64-plus):
Use platform name from upstream ("sun50i_a64").
[version]: Update to 2.0-1.cabe0a3,
[source](uri): Use upstream git repository.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2018-11-20 23:32:55 +01:00
Christopher Baines be02d4df84
gnu: Add python-django-debug-toolbar. 
* gnu/packages/django.scm (python-django-debug-toolbar,
python2-django-debug-toolbar): New variables.
 2018-11-20 19:48:03 +00:00
Christopher Baines a2e9259697
gnu: Add python-django-jinja. 
* gnu/packages/django.scm (python-django-jinja, python2-django-jinja): New
variables.
 2018-11-20 19:48:02 +00:00
Christopher Baines 6cd1bbd0b1
gnu: Add python-django-pipeline. 
* gnu/packages/django.scm (python-django-pipeline, python2-django-pipeline):
New variables.
 2018-11-20 19:48:02 +00:00
Christopher Baines 9c98d588c2
gnu: Add python-slimit. 
* gnu/packages/python-web.scm (python-slimit, python2-slimit): New variables.
 2018-11-20 19:48:02 +00:00
Christopher Baines 90b9c5adea
gnu: Add python-jsmin. 
* gnu/packages/python-web.scm (python-jsmin, python2-jsmin): New variables.
 2018-11-20 19:48:00 +00:00
Kei Kebreau b3175c709d
gnu: cabextract: Update to 1.9. 
* gnu/packages/compression.scm (cabextract): Update to 1.9.
[arguments]: Add phase "unpack-libmspack".
[inputs]: Add libmspack-source.
 2018-11-20 13:55:10 -05:00
Kei Kebreau ea80fd1ff5
gnu: libmspack: Update to 0.9.1. 
* gnu/packages/compression.scm (libmspack): Update to 0.9.1.
 2018-11-20 13:53:06 -05:00
Ludovic Courtès 3c4103c84f
gnu: java-jansi-native: Add "mips64el-linux" case. 
* gnu/packages/java.scm (java-jansi-native)[arguments]: Add
"mips64el-linux" in 'match' clause.
 2018-11-20 18:39:22 +01:00
Ludovic Courtès e11462c2e4
Revert "gnu: ccl: Include x86-headers and remove missing "contrib" folder." 
This reverts commit d22ba64276, which
broke evaluations for armhf-linux.
 2018-11-20 18:36:05 +01:00
Ludovic Courtès 242b29baa1
gnu: autotalent: Simplify 'license'. 
* gnu/packages/audio.scm (autotalent)[license]: Remove unnecessary 'list'.
 2018-11-20 18:36:05 +01:00
Efraim Flashner 5e369f8ab9
gnu: Add pinentry-efl. 
* gnu/packages/gnupg.scm (pinentry-efl): New variable.
* gnu/packages/patches/pinentry-efl.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
 2018-11-20 12:38:57 +02:00
Marius Bakke 30f0feff19
gnu: libwebp: Update to 1.0.1. 
* gnu/packages/image.scm (libwebp): Update to 1.0.1.
 2018-11-20 00:57:49 +01:00
Marius Bakke 7882cc55bc
gnu: fluidsynth: Update to 2.0.2. 
* gnu/packages/audio.scm (fluidsynth): Update to 2.0.2.
 2018-11-20 00:57:49 +01:00
Marius Bakke 352401efb8
gnu: python-joblib: Update home page. 
* gnu/packages/python.scm (python-joblib)[home-page]: Update to current.
 2018-11-20 00:57:49 +01:00
Marius Bakke ff43d95807
gnu: python-joblib: Update to 0.13.0. 
* gnu/packages/python.scm (python-joblib): Update to 0.13.0.
[source](snippet): Remove.
[arguments]: Remove 'disable-failing-tests' phase.  Add custom check phase.
[native-inputs]: Remove PYTHON-NOSE, PYTHON-SPHINX, PYTHON-DOCUTILS and
PYTHON-NUMPYDOC.  Add PYTHON-PYTEST.
 2018-11-20 00:57:49 +01:00
Marius Bakke 89d88b8530
gnu: python-natsort: Update to 5.4.1. 
* gnu/packages/python.scm (python-natsort): Update to 5.4.1.
[arguments]: Add #:modules.  Replace 'check' phase with custom pytest
invokation.
[native-inputs]: Remove PYTHON-PYTEST-CACHE, PYTHON-PYTEST-FLAKES and
PYTHON-PYTEST-PEP8.  Add PYTHON-PYTEST and PYTHON-PYTEST-MOCK.
(python2-natsort)[native-inputs]: Remove PYTHON2-ENUM34 and PYTHON2-MOCK.
 2018-11-20 00:57:48 +01:00
Marius Bakke 4a4f3e771b
gnu: z3: Update to 4.8.1. 
* gnu/packages/maths.scm (z3): Update to 4.8.1.
 2018-11-20 00:57:48 +01:00
Marius Bakke fb525bfd83
gnu: z3: Fetch source using git. 
* gnu/packages/maths.scm (z3)[source]: Change to GIT-FETCH.
 2018-11-20 00:57:48 +01:00
Pkill -9 cc661cb348
gnu: xonotic: Symlink to xonotic data instead of copying into xonotic. 
* gnu/packages/games.scm (xonotic)[arguments]: Modify the phase
'install-data so it creates a symlink to xonotic's data instead of
copying it into the xonotic package.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-19 23:11:38 +01:00
Thorsten Wilms c3276dbecb
gnu: Add autotalent. 
* gnu/packages/audio.scm (autotalent): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-19 23:11:38 +01:00
Ludovic Courtès 887437ee0e
gnu: git-when-merged: Fix license. 
Reported by Mark H Weaver <mhw@netris.org>.

* gnu/packages/version-control.scm (git-when-merged)[license]: Change to
GPL2+.
 2018-11-19 23:11:38 +01:00
Roel Janssen 4db71841ee
gnu: r-shinyfiles: Update to 0.7.2. 
* gnu/packages/web.scm (r-shinyfiles): Update to 0.7.2.
 2018-11-19 17:20:05 +01:00
Roel Janssen 0adf04a2d3
gnu: r-mclust: Update to 5.4.2. 
* gnu/packages/statistics.scm (r-mclust): Update to 5.4.2.
 2018-11-19 17:19:44 +01:00
Roel Janssen 185663e568
gnu: r-openssl: Update to 1.1. 
* gnu/packages/statistics.scm (r-openssl): Update to 1.1.
 2018-11-19 17:19:15 +01:00
Roel Janssen 749872a5ed
gnu: r-biocmanager: Update to 1.30.4. 
* gnu/packages/cran.scm (r-biocmanager): Update to 1.30.4.
 2018-11-19 17:18:41 +01:00
Roel Janssen 278e0f6506
gnu: r-ggeffects: Update to 0.7.0. 
* gnu/packages/cran.scm (r-ggeffects): Update to 0.7.0.
 2018-11-19 17:18:19 +01:00
Roel Janssen fba7dbe76c
gnu: r-sjstats: Update to 0.17.2. 
* gnu/packages/cran.scm (r-sjstats): Update to 0.17.2.
 2018-11-19 17:17:54 +01:00
Roel Janssen 1659c5dd27
gnu: r-ggpubr: Update to 0.2. 
* gnu/packages/cran.scm (r-ggpubr): Update to 0.2.
 2018-11-19 17:17:25 +01:00
Roel Janssen e396b37822
gnu: r-recipes: Update to 0.1.4. 
* gnu/packages/cran.scm (r-recipes): Update to 0.1.4.
 2018-11-19 17:17:03 +01:00
Roel Janssen e21659c70b
gnu: r-dimred: Update to 0.2.2. 
* gnu/packages/cran.scm (r-dimred): Update to 0.2.2.
 2018-11-19 17:16:35 +01:00
Roel Janssen c2e26dc156
gnu: r-ensembldb: Update to 2.6.2. 
* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.6.2.
 2018-11-19 16:46:32 +01:00
Roel Janssen e038819138
gnu: r-msnbase: Update to 2.8.1. 
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.8.1.
 2018-11-19 16:46:00 +01:00
Roel Janssen 4535a7b0f5
gnu: r-genomeinfodb: Update to 1.18.1. 
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.18.1.
 2018-11-19 16:33:35 +01:00
Alex Vong 5497214d80
gnu: Add clojure-algo-monads. 
* gnu/packages/lisp.scm (clojure-algo-monads): New public variable.
 2018-11-19 12:10:06 +01:00
Alex Vong 2cab1d4a7d
gnu: Add clojure-tools-macro. 
* gnu/packages/lisp.scm (clojure-tools-macro): New public variable.
 2018-11-19 12:09:53 +01:00
Alex Vong eea5530c9f
gnu: Add clojure-algo-generic. 
* gnu/packages/lisp.scm (clojure-algo-generic): New public variable.
 2018-11-19 12:09:39 +01:00
Alex Vong c784ffa0c4
gnu: Add clojure-core-match. 
* gnu/packages/lisp.scm (clojure-core-match): New public variable.
 2018-11-19 12:09:15 +01:00
Alex Vong d2a659e5bf
gnu: Add clojure-instaparse. 
* gnu/packages/lisp.scm (clojure-instaparse): New public variable.
 2018-11-19 12:08:26 +01:00
Alex Vong 53f316ab90
guix: Add clojure-utils. 
* guix/build/clojure-utils.scm: New file.
* gnu/packages/lisp.scm (clojure)[arguments]: Use it.
* Makefile.am (MODULES): Add it.
 2018-11-19 12:05:19 +01:00
Alex Vong d0ad97115a
gnu: clojure: Use (guix build java-utils) to simplify build phases. 
* gnu/packages/lisp.scm (clojure)[arguments]: Use 'ant-build-javadoc',
'install-jars' and 'install-javadoc' in build phases.
 2018-11-19 12:02:26 +01:00
Alex Vong 8da9187a5a
gnu: clojure: Refactor to ensure there's a single list of libraries. 
This avoids having to update multiple lists.

* gnu/packages/lisp.scm (clojure)[native-inputs]: Use new local variable.
[arguments]: Adjust build phases accordingly.
 2018-11-19 12:02:09 +01:00
Alex Vong df0a180421
gnu: clojure: Remove 'remove-archives' snippet. 
This is no longer needed since clojure now makes official source releases
in github.

* gnu/packages/lisp.scm (clojure)[source]: Remove it.
[native-inputs]: Remove it in 'submodule'.
[arguments]: Adjust 'unpack-submodule-sources' phase accordingly.
 2018-11-19 12:01:48 +01:00
Alex Vong 28e32b14e4
gnu: clojure: Move from java to lisp. 
* gnu/packages/java.scm (clojure): Move from here...
* gnu/packages/lisp.scm (clojure): ...to here.
 2018-11-19 12:01:25 +01:00
Jovany Leandro G.C f4ee41c960
gnu: python-kivy: Update to 1.10.1 
* gnu/packages/python.scm (python-kivy): Update to 1.10.1.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-19 09:59:08 +01:00
Ludovic Courtès 5e9ce98af7
gnu: help2man: Add 1.47.8. 
* gnu/packages/man.scm (help2man/latest): New variable.
 2018-11-19 09:59:08 +01:00
Ludovic Courtès 1372754dc0
gnu: fuse-exfat: Update to 1.3.0. 
* gnu/packages/linux.scm (fuse-exfat): Update to 1.3.0.
 2018-11-19 09:59:08 +01:00
Ludovic Courtès c39f3e1c43
gnu: diffoscope: Update to 105. 
* gnu/packages/package-management.scm (diffoscope): Update to 105.
 2018-11-19 09:59:07 +01:00
Leo Famulari 5c40a69f71
gnu: Add libfdk 'FDK AAC' library. 
* gnu/packages/audio.scm (libfdk): New variable.
 2018-11-18 18:19:34 -05:00
Julien Lepiller 564cf93f2a
gnu: ocaml: Update to 4.7.0. 
Update ocaml to the latest version and fixes dependent packages by
updating them or by adding new inputs, such as ocaml-num and ocamlbuild,
that were removed from the core ocaml package. Rename packages that
cannot be built with the new compiler with an ocaml4.02 prefix. Add
ocaml4.02 dependencies.

* gnu/packages/ocaml.scm (ocaml): Update to 4.7.0.
(ocaml-4.02, ocamlbuild, camlp4-4.02, ocaml-num, ocaml4.02-menhir)
(ocaml4.02-lablgtk, ocaml4.02-findlib, ocaml4.02-ounit, ocaml4.02-camlzip)
(ocaml4.02-ocamlmod, ocaml4.02-zarith, ocaml4.02-qcheck, ocaml4.02-qtest)
(ocaml4.02-stringext, ocaml4.02-bisect, dune, ocaml-migrate-parsetree)
(ocaml-ppx-tools-versioned, ocaml-ppx-tools-versioned)
(ocaml4.02-bitstring, ocaml4.02-result, ocaml4.02-topkg, ocaml4.02-rresult)
(ocaml4.02-sqlite3, ocaml4.02-csv, ocaml4.02-mtime, ocaml4.02-cmdliner)
(ocaml4.02-fmt, ocaml4.02-astring, ocaml4.02-alcotest, ocaml4.02-ppx-tools)
(ocaml4.02-react, ocaml4.02-ssl, ocaml4.02-lwt, ocaml-lwt-log)
(ocaml4.02-lwt-log, ocaml4.02-logs, ocaml4.02-fpath, ocaml4.02-bos)
(ocaml4.02-xmlm, ocaml4.02-ulex, ocaml4.02-uchar, ocaml4.02-uutf)
(ocaml4.02-jsonm, ocaml4.02-ocurl, ocaml4.02-base64, ocaml4.02-omake)
(ocaml4.02-batteries, ocaml4.02-pcre, ocaml4.02-oasis)
(ocaml4.02-js-build-tools, ocaml4.02-cppo, ocaml-seq, ocaml4.02-seq)
(ocaml4.02-re, ocaml4.02-ocplib-endian, ocaml4.02-easy-format)
(ocaml4.02-piqilib, ocaml4.02-uuidm, ocaml4.02-graph, ocaml4.02-piqi)
(ocaml4.02-camomile, ocaml4.02-zed, ocaml4.02-lambda-term): New packages.
(opam): Update to 2.0.0.
(camlp4): Update to 4.07+1.
(camlp5): Update to 7.06.
(hevea): Update to 2.32.
(coq)[inputs]: Add ocaml-num.
(emacs-tuareg): Update to 2.2.0.
(ocaml-menhir)[native-inputs]: Add ocamlbuild.
(ocaml-lablgtk): Update to 2.18.6.
(unison)[inputs]: Use ocaml-4.02.
(ocaml-findlib): Update to 1.8.0.
(ocaml-ounit)[native-inputs]: Add ocamlbuild.
(ocamlmod): Update to 0.0.9.
(ocaml-frontc)[arguments]: Use ocaml-4.02.
(ocaml-qcheck)[native-inputs]: Add ocamlbuild.
(ocaml-qtest)[native-inputs]: Remove ocaml-findlib and add ocamlbuild.
(ocaml-stringext)[native-inputs]: Add ocamlbuild.
(ocaml-bisect): Update to 1.3.1.
(ocaml4.01-bisect): Downgrade to 1.3.
(ocaml-bitstring): Update to 3.1.0.
(ocaml-topkg)[native-inputs]: Add ocamlbuild.
(ocaml-rresult)[native-inputs]: Add ocamlbuild.
(ocaml-sqlite3)[native-inputs]: Add ocamlbuild.
(ocaml-csv)[native-inputs]: Add ocamlbuild.
(ocaml-mtime)[native-inputs]: Add ocamlbuild.
(ocaml-cmdliner)[native-inputs]: Add ocamlbuild.
(ocaml-fmt)[native-inputs]: Add ocamlbuild.
(ocaml-astring)[native-inputs]: Add ocamlbuild.
(ocaml-alcotest)[native-inputs]: Add ocamlbuild.
(ocaml-ppx-tools)[native-inputs]: Add ocamlbuild.
(ocaml-react)[native-inputs]: Add ocamlbuild.
(ocaml-ssl)[arguments]: Return #t in phases.
(ocaml-lwt): Update to 4.1.0.
(ocaml-logs)[native-inputs]: Add ocamlbuild.
(ocaml-fpath)[native-inputs]: Add ocamlbuild.
(ocaml-bos)[native-inputs]: Add ocamlbuild.
(ocaml-xmlm): Update to 1.3.0.
(ocaml-ulex): Update to 1.2.0.
(ocaml-uchar)[native-inputs]: Add ocamlbuild.
(ocaml-uutf): Update to 1.0.1.
(ocaml-jsonm): Update to 1.0.1.
(ocaml-ocurl): Update to 0.8.2.
(ocaml-base64)[native-inputs]: Add ocamlbuild.
(ocamlify)[native-inputs]: Use ocaml-4.02.
(omake): Update to 0.10.3.
(ocaml-batteries): Update to 2.9.0.
(ocaml-pcre)[native-inputs]: Add ocamlbuild.
(ocaml-expect): Update 0.0.6.
(ocaml4.02-fileutils): Update to 0.5.3.
(ocaml-oasis): Update 0.4.11.
(ocaml-js-build-tools)[native-inputs]: Add ocamlbuild.
(ocaml-bin-prot): Rename to ocaml4.02-bin-prot.
(ocaml-fieldslib): Rename to ocaml4.02-fieldslib.
(ocaml-ppx-core): Rename to ocaml4.02-ppx-core.
(ocaml-ppx-optcomp): Rename to ocaml4.02-ppx-optcomp.
(ocaml-ppx-driver): Rename to ocaml4.02-ppx-driver.
(ocaml-cppo): Update to 1.6.5.
(ocaml-ppx-deriving): Rename to ocaml4.02-ppx-deriving.
(ocaml-ppx-type-conv): Rename to ocaml4.02-ppx-type-conv.
(ocaml-ppx-inline-test): Rename to ocaml4.02-ppx-inline-test.
(ocaml-ppx-bench): Rename to ocaml4.02-ppx-bench.
(ocaml-ppx-compare): Rename to ocaml4.02-ppx-compare.
(ocaml-sexplib): Rename to ocaml4.02-sexplib.
(ocaml-typerep): Rename to ocaml4.02-typerep.
(ocaml-variantslib): Rename to ocaml4.02-variantslib.
(ocaml-ppx-sexp-conv): Rename to ocaml4.02-ppx-sexp-conv.
(ocaml-ppx-variants-conv): Rename to ocaml4.02-ppx-variants-conv.
(ocaml-ppx-here): Rename to ocaml4.02-ppx-here.
(ocaml-ppx-assert): Rename to ocaml4.02-ppx-assert.
(ocaml-ppx-enumerate): Rename to ocaml4.02-ppx-enumerate.
(ocaml-ppx-let): Rename to ocaml4.02-ppx-let.
(ocaml-ppx-typerep-conv): Rename to ocaml4.02-ppx-typerep-conv.
(ocaml-ppx-sexp-value): Rename to ocaml4.02-ppx-sexp-value.
(ocaml-ppx-pipebang): Rename to ocaml4.02-ppx-pipebang.
(ocaml-ppx-bin-prot): Rename to ocaml4.02-ppx-bin-prot.
(ocaml-ppx-fail): Rename to ocaml4.02-ppx-fail.
(ocaml-ppx-custom-printf): Rename to ocaml4.02-ppx-custom-printf.
(ocaml-ppx-sexp-message): Rename to ocaml4.02-ppx-sexp-message.
(ocaml-ppx-fields-conv): Rename to ocaml4.02-ppx-fields-conv.
(ocaml-re): Update to 1.8.0.
(ocaml-ppx-expect): Rename to ocaml4.02-ppx-expect.
(ocaml-ppx-jane): Rename to ocaml4.02-ppx-jane.
(ocaml-core-kernel): Rename to ocaml4.02-core-kernel.
(ocaml-async-kernel): Rename to ocaml4.02-async-kernel.
(ocaml-async-rpc-kernel): Rename to ocaml4.02-async-rpc-kernel.
(ocaml-core): Rename to ocaml4.02-core.
(ocaml-async-unix): Rename to ocaml4.02-async-unix.
(ocaml-async-extra): Rename to ocaml4.02-async-extra.
(ocaml-async): Rename to ocaml4.02-async.
(ocaml-ocplib-endian)[native-inputs]: Update to 1.0.
(ocaml-cstruct): Rename to ocaml4.02-cstruct.
(ocaml-hex): Rename to ocaml4.02-hex.
(ocaml-ezjsonm): Rename to ocaml4.02-ezjsonm.
(ocaml-uri): Rename to ocaml4.02-uri.
(optcomp): Use ocaml-4.02.
(ocaml-piqilib): Update to 0.6.14.
(ocaml-uuidm)[native-inputs]: Add ocamlbuild.
(ocaml-graph): Update to 1.8.8.
(ocaml-piqi): Update to 0.7.6.
(bap): Update to 1.3.0.
(ocaml-camomile): Update to 1.0.1.
(ocaml-jbuilder): Use ocaml-4.02.
(ocaml-lambda-term): Update to 1.13.
(ocaml-utop): Update to 2.2.0.
(ocaml-integers)[native-inputs]: Add ocamlbuild.
(ocaml-ctypes): Update to 0.14.0.
(ocaml-ocb-stubblr)[native-inputs]: Add ocamlbuild.
(ocaml-tsdl)[native-inputs]: Add ocamlbuild.
* gnu/packages/machine-learning.scm (ocaml-mcl): Use ocaml-4.02.
* gnu/packages/maths.scm (cubicle): Update to 1.1.2.
* gnu/packages/patches/ocaml-bisect-fix-camlp4-in-another-directory.patch:
Update patch.
* guix/build-system/ocaml.scm: (default-ocaml4.02, default-ocaml4.02-findlib)
(package-with-ocaml4.02, strip-ocaml4.02-variant): New variables.
 2018-11-18 18:51:08 +01:00
Kei Kebreau 1472d19abf
gnu: maxima: Fix tests on i686 and x86_64. 
* gnu/packages/maths.scm (maxima)[arguments]: Replace check phase.
 2018-11-18 11:58:38 -05:00
Pierre Neidhardt d22ba64276
gnu: ccl: Include x86-headers and remove missing "contrib" folder. 
* gnu/packages/lisp.scm (ccl): Include x86-headers and remove missing "contrib" folder.
 2018-11-18 10:39:47 +01:00
Marius Bakke f8cba3ff4f
gnu: mesa: Stay on RTTI-less LLVM. 
* gnu/packages/llvm.scm (llvm-without-rtti): New public variable.
* gnu/packages/gl.scm (mesa)[inputs]: Use that instead of LLVM.
 2018-11-17 22:54:03 +01:00
Eric Bavier 0a41123f01
gnu: Add ClamAV. 
* gnu/packages/antivirus.scm: New file.
* gnu/packages/patches/clamav-system-tomsfastmath.patch,
gnu/packages/patches/clamav-config-llvm-libs.patch: New files.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add new module.
(dist_patch_DATA): Add patches.

Co-authored-by: Christopher Baines <mail@cbaines.net>
 2018-11-17 00:20:44 -06:00
Eric Bavier 7ed018e8a2
gnu: Add TomsFastMath. 
* gnu/packages/multiprecision.scm (tomsfastmath): New variable.
* gnu/packages/patches/tomsfastmath-constness.patch: New patch.
* gnu/local.mk (dist_patch_DATA): Add it.
 2018-11-17 00:20:44 -06:00
Eric Bavier fc9dbf4131
llvm: Build with RTTI by default. 
Increases size of llvm@6 by 2.5MiB (2.5%), but saves building specialized
llvm's with rtti enabled for packages that require RTTI when linking with the
llvm libraries.

* gnu/packages/llvm.scm (llvm-3.8-with-rtti): Remove variable.
(llvm)[arguments]: Add '-DLLVM_REQUIRES_RTTI=1' to #:configure-flags.
* gnu/packages/audio.scm (faust-2)[native-inputs]:
'llvm-3.8-with-rtti' -> 'llvm-3.8'.
 2018-11-17 00:19:53 -06:00
Vagrant Cascadian 0c7707d53e
gnu: u-boot: Update to 2018.11. 
* gnu/packages/bootloaders.scm (u-boot): Update to 2018.11.
(u-boot)[native-inputs]: Add lz4.
 2018-11-17 00:16:29 +01:00
Kyle Meyer 243bdcc12e
gnu: Add git-when-merged. 
* gnu/packages/version-control.scm (git-when-merged): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-16 23:11:40 +01:00
Thorsten Wilms 7a44e8752e
gnu: Add caps-plugins-lv2. 
* gnu/packages/audio.scm (caps-plugins-lv2): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-16 23:09:00 +01:00
David Thompson a7b7d48cc7
gnu: tiled: Update to 1.2.1. 
* gnu/packages/game-development.scm (tiled): Update to 1.2.1.
 2018-11-16 10:34:29 -05:00
Mathieu Othacehe 2aee2a96b6
guile: newt: Update revision to 2. 
* gnu/packages/guile.scm (guile-newt): Update revision to 2.
 2018-11-16 17:42:07 +09:00
Andreas Enge eea7cd7519
gnu: Add cmh. 
* gnu/packages/algebra.scm (cmh): New variable.
 2018-11-16 09:06:31 +01:00
Andreas Enge 44ff80fc0e
gnu: gp2c: Update to 0.0.11pl1. 
* gnu/packages/algebra.scm (gp2c): Update to 0.0.11pl1.
 2018-11-16 08:48:47 +01:00
Maxim Cournoyer 03592a6f88
gnu: emacs-realgud: Patch configure.ac to repair the build. 
This fixes https://bugs.gnu.org/33196, a build problem caused by a defective
Elisp snippet in a check in configure.ac.

* gnu/packages/patches/emacs-realgud-fix-configure-ac.patch: Add patch.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/emacs.scm (emacs-realgud)[source]: Use it.
 2018-11-15 22:42:35 -05:00
pimi 30f0d21b40
gnu: Add nanopolish. 
* gnu/packages/bioinformatics.scm (nanopolish): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2018-11-15 22:23:57 +01:00
Roel Janssen 2d86eaff5b
gnu: sambamba: Update to 0.6.8. 
* gnu/packages/bioinformatics.scm (sambamba): Update to 0.6.8.
 2018-11-15 13:09:01 +01:00
Mark H Weaver 7413c31693
gnu: linux-libre: Update to 4.19.2. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.19.2.
(%linux-libre-hash): Update hash.
 2018-11-14 19:16:24 -05:00
Mark H Weaver 24ba798731
gnu: linux-libre@4.14: Update to 4.14.81. 
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.81.
(%linux-libre-4.14-hash): Update hash.
 2018-11-14 19:14:39 -05:00
Mark H Weaver 6a1cff70bc
gnu: linux-libre@4.9: Update to 4.9.137. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.137.
 2018-11-14 19:13:46 -05:00
Paul Garlick ae0f1dd1a4
gnu: Add fenics. 
* gnu/packages/simulation.scm (fenics): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:09 +01:00
Paul Garlick 0ace6c0b84
gnu: Add fenics-dolfin. 
* gnu/packages/simulation.scm (fenics-dolfin): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:09 +01:00
Paul Garlick 6b7f1f8afa
gnu: Add python-fenics-ffc. 
* gnu/packages/simulation.scm (python-fenics-ffc): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:09 +01:00
Paul Garlick 0fc499834f
gnu: Add python-fenics-fiat. 
* gnu/packages/simulation.scm (python-fenics-fiat): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick 3941cf5afa
gnu: Add python-fenics-ufl. 
* gnu/packages/simulation.scm (python-fenics-ufl): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick f7a4757a4c
gnu: Add python-fenics-dijitso. 
* gnu/packages/simulation.scm (python-fenics-dijitso): New varaible.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick 6b5687d053
gnu: Add python-slepc4py. 
* gnu/packages/maths.scm (python-slepc4py): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick 90ff287401
gnu: Add python-petsc4py. 
* gnu/packages/maths.scm (python-petsc4py): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick 54fcd547b3
gnu: Add python-mpi4py. 
* gnu/packages/mpi.scm (python-mpi4py): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Ludovic Courtès 7a54b2281d
gnu: guix-daemon: Install 'guix-authenticate'. 
Fixes <https://bugs.gnu.org/33368>.
Reported by Konrad Hinsen <konrad.hinsen@fastmail.net>.

* gnu/packages/package-management.scm (guix-daemon)[arguments]: In
'install' phase, build "install-nodist_libexecSCRIPTS" target to install
'guix-authenticate'.
 2018-11-14 21:34:08 +01:00
Marius Bakke e921993c25
gnu: xf86-video-r128: Update to 6.12.0. 
* gnu/packages/xorg.scm (xf86-video-r128): Update to 6.12.0.
 2018-11-14 21:05:30 +01:00
Marius Bakke 24dd6ec38a
gnu: mtools: Update to 4.0.20. 
* gnu/packages/mtools.scm (mtools): Update to 4.0.20.
[source](uri): Change to 'bz2' compressed tarball.
 2018-11-14 21:05:30 +01:00
Marius Bakke 7939387da8
gnu: nano: Update to 3.2. 
* gnu/packages/nano.scm (nano): Update to 3.2.
 2018-11-14 21:05:30 +01:00
Marius Bakke d63f588486
gnu: sudo: Update to 1.8.26. 
* gnu/packages/admin.scm (sudo): Update to 1.8.26.
 2018-11-14 21:05:30 +01:00
Marius Bakke bac2974e86
gnu: feh: Update to 3.0. 
* gnu/packages/image-viewers.scm (feh): Update to 3.0.
 2018-11-14 21:05:30 +01:00
Ricardo Wurmus ee66a13563
gnu: Add jamm. 
* gnu/packages/bioinformatics.scm (jamm): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus e4f4a04a51
gnu: Add r-ouch. 
* gnu/packages/cran.scm (r-ouch): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus 10483a64ee
gnu: Add r-activity. 
* gnu/packages/cran.scm (r-activity): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus 3cef715a46
gnu: Add r-circular. 
* gnu/packages/cran.scm (r-circular): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus 08bf097a0b
gnu: Add r-overlap. 
* gnu/packages/cran.scm (r-overlap): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus acbf23da44
gnu: Add r-acdm. 
* gnu/packages/cran.scm (r-acdm): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus ffdeda3ce0
gnu: Add r-acd. 
* gnu/packages/cran.scm (r-acd): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus 488dc4e1e2
gnu: Add r-abn. 
* gnu/packages/cran.scm (r-abn): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus 0c92f3734e
gnu: Add r-rjags. 
* gnu/packages/cran.scm (r-rjags): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus 0bca8643a2
gnu: Add jags. 
* gnu/packages/statistics.scm (jags): New variable.
 2018-11-14 15:13:17 +01:00
Ricardo Wurmus 51b262f310
gnu: r-txdb-mmusculus-ucsc-mm10-knowngene: Update to 3.4.4. 
* gnu/packages/bioinformatics.scm (r-txdb-mmusculus-ucsc-mm10-knowngene):
Update to 3.4.4.
 2018-11-13 23:34:40 +01:00
Ricardo Wurmus d34959b8d4
gnu: r-org-mm-eg-db: Update to 3.7.0. 
* gnu/packages/bioinformatics.scm (r-org-mm-eg-db): Update to 3.7.0.
 2018-11-13 23:34:40 +01:00
Ricardo Wurmus 314511b862
gnu: r-org-dm-eg-db: Update to 3.7.0. 
* gnu/packages/bioinformatics.scm (r-org-dm-eg-db): Update to 3.7.0.
 2018-11-13 23:34:39 +01:00
Ricardo Wurmus 76bd16bcf6
gnu: r-org-ce-eg-db: Update to 3.7.0. 
* gnu/packages/bioinformatics.scm (r-org-ce-eg-db): Update to 3.7.0.
 2018-11-13 23:34:39 +01:00
Ricardo Wurmus fc7683fa30
gnu: r-org-hs-eg-db: Update to 3.7.0. 
* gnu/packages/bioinformatics.scm (r-org-hs-eg-db): Update to 3.7.0.
 2018-11-13 23:34:39 +01:00
Ricardo Wurmus cb9e6ed702
gnu: r-genomationdata: Update to 1.14.0. 
* gnu/packages/bioinformatics.scm (r-genomationdata): Update to 1.14.0.
 2018-11-13 23:34:39 +01:00
Ricardo Wurmus 13e70f6304
gnu: r-go-db: Update to 3.7.0. 
* gnu/packages/bioinformatics.scm (r-go-db): Update to 3.7.0.
 2018-11-13 23:34:39 +01:00
Ricardo Wurmus 13a574652b
gnu: r-genomeinfodbdata: Update to 1.2.0. 
* gnu/packages/bioinformatics.scm (r-genomeinfodbdata): Update to 1.2.0.
 2018-11-13 23:34:39 +01:00
Taegil Bae 3f995aaf21
gnu: spice-vdagent: Fix typo in desktop file. 
Fixes <https://bugs.gnu.org/33346>.

* gnu/packages/spice.scm (spice-vdagent)[arguments]: Fix typo in
'patch-spice-vdagent.desktop' phase.
 2018-11-13 15:26:30 -05:00
Alex Vong c991806a7d
gnu: ImageMagick: Update to 6.9.10-14. 
* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.10-14.
 2018-11-14 03:09:37 +08:00
Leo Famulari d540137509
gnu: libssh: Fetch source over HTTPS. 
* gnu/packages/ssh.scm (libssh)[source]: Use HTTPS URL.
 2018-11-13 11:43:35 -05:00
Leo Famulari 978d59737a
gnu: direnv: Build with Go 1.9. 
* gnu/packages/shellutils.scm (direnv)[native-inputs]: Remove go.
[inputs]: Add go-1.9.
 2018-11-13 11:28:23 -05:00