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33220 Commits

Author SHA1 Message Date
Ricardo Wurmus 08d1a8b138
gnu: pigx-scrnaseq: Update to 0.0.6. 
* gnu/packages/bioinformatics.scm (pigx-scrnaseq): Update to 0.0.6.
[arguments]: Remove "wrap-executable" phase.
 2018-07-05 00:52:31 +02:00
Julien Lepiller 137bd98353
gnu: maven: Fix maven crash when compiling java8 code. 
* gnu/packages/maven.scm (maven)[arguments]: Configure classloading
properly instead of adding jars to maven's classpath.
 2018-07-04 21:29:23 +02:00
Julien Lepiller 892a5647de
gnu: maven-compat: Fix test failure. 
* gnu/packages/maven.scm (maven-compat)[arguments]: Add
recreate-removed-jar phase.
 2018-07-04 21:09:56 +02:00
Julien Lepiller d440df618d
gnu: maven-artifact: Update to 3.5.4. 
* gnu/packages/maven.scm (maven-artifact): Update to 3.5.4.
(maven-core)[arguments]: Use new version.
 2018-07-04 21:08:08 +02:00
Julien Lepiller 8d66cda690
gnu: maven-wagon-provider-api: Update to 3.1.0. 
* gnu/packages/maven.scm (maven-wagon-provider-api): Update to 3.1.0.
 2018-07-04 21:06:24 +02:00
Julien Lepiller a70182b099
gnu: java-plexus-compiler-api: Update to 2.8.4. 
* gnu/packages/java.scm (java-plexus-compiler-api): Update to 2.8.4.
 2018-07-04 21:05:36 +02:00
Julien Lepiller ff5cd137ef
nls: Update 'fr' translation. 2018-07-04 21:03:10 +02:00
Arun Isaac b53a0c882d
gnu: ledger: Use HTTPS home page URI. 
* gnu/packages/finance.scm (ledger)[home-page]: Use HTTPS URI.
 2018-07-04 18:16:34 +05:30
Arun Isaac 1f3c4ba8f3
gnu: ledger: Use invoke and fix #t return. 
* gnu/packages/finance.scm (ledger)[arguments]: Replace system* with invoke in
build-doc phase. Remove #t return from relocate-elisp phase since
emacs-generate-autoloads already returns #t.
 2018-07-04 18:13:31 +05:30
Arun Isaac 948e888d3a
gnu: ledger: Skip failing test. 
* gnu/packages/finance.scm (ledger)[arguments]: Set #:make-flags to skip
failing test BaselineTest_cmd-org. Replace check phase with the check phase
from gnu-build-system.
 2018-07-04 18:11:30 +05:30
Rutger Helling d88b29d6b7
gnu: qtox: Update to 1.16.0. 
* gnu/packages/messaging.scm (qtox): Update to 1.16.0.
 2018-07-04 08:57:16 +02:00
Tobias Geerinckx-Rice 5d1a3219d2
gnu: clutter-gtk: Update to 1.8.4. 
* gnu/packages/gnome.scm (clutter-gtk): Update to 1.8.4.
 2018-07-04 02:45:40 +02:00
Tobias Geerinckx-Rice 357d74c025
gnu: totem: Update to 3.26.1. 
I did not re-enable #:parallel-build? because I was unable to reproduce
the original failure in the first place.

* gnu/packages/gnome.scm (totem): Update to 3.26.1.
 2018-07-04 02:45:40 +02:00
Tobias Geerinckx-Rice 5554312b2f
gnu: exempi: Update to 2.4.5. 
* gnu/packages/freedesktop.scm (exempi): Update to 2.4.5.
 2018-07-04 02:45:39 +02:00
Tobias Geerinckx-Rice 55e3e1ceb9
gnu: gtkwave: Update to 3.3.91. 
* gnu/packages/fpga.scm (gtkwave): Update to 3.3.91.
 2018-07-04 02:45:39 +02:00
Tobias Geerinckx-Rice 6f832aa01a
gnu: kicad-library: Update to 4.0.7. 
* gnu/packages/engineering.scm (kicad-library): Update to 4.0.7.
 2018-07-04 02:45:39 +02:00
Tobias Geerinckx-Rice 6c08ea6a5c
gnu: kicad-library: Return #t from phases. 
* gnu/packages/engineering.scm (kicad-library)[arguments]: Substitute
INVOKE for SYSTEM*.
 2018-07-04 02:45:39 +02:00
Tobias Geerinckx-Rice 7d0370ede4
gnu: r-learnr: Update to 0.9.2.1. 
* gnu/packages/cran.scm (r-learnr): Update to 0.9.2.1.
 2018-07-04 02:45:38 +02:00
Ricardo Wurmus fab43c6b84
gnu: Add r-loomr. 
* gnu/packages/bioinformatics.scm (r-loomr): New variable.
 2018-07-03 17:58:55 +02:00
Ricardo Wurmus 3568b8234a
gnu: Add r-itertools. 
* gnu/packages/cran.scm (r-itertools): New variable.
 2018-07-03 17:58:55 +02:00
Björn Höfling a51cf16031
gnu: Update stellarium to 0.18.0. 
[[PGP Signed Part:Good signature from BF286CB6593E5FFD Björn Höfling <bjoern.hoefling@bjoernhoefling.de> (trust undefined) created at 2018-06-29T20:39:51+0200 using DSA]]

* gnu/packages/astronomy.scm (stellarium): Update to 0.18.0.
[home-page]: Update URL.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-07-03 17:50:05 +02:00
Pierre Neidhardt c1220498b0
gnu: emacs-helm-system-packages: Update to 1.10.0. 
* gnu/packages/emacs.scm (emacs-helm-system-packages): Update to 1.10.0.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-07-03 17:50:04 +02:00
Fis Trivial 53fc7a09f6
gnu: Add pocl. 
* gnu/packages/opencl.scm (pocl): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-07-03 17:50:04 +02:00
Ludovic Courtès 3c78f5b5c3
tests: basic: Wait for /var/run/shepherd/socket to be ready. 
* gnu/tests/base.scm (run-basic-test)["shepherd socket ready"]: New test.
 2018-07-03 17:50:04 +02:00
Ludovic Courtès 86eee976f5
Revert "packages: Optimize 'package-transitive-supported-systems'." 
This reverts commit 24420f5ffa.

This broke 'package-transitive-supported-systems', which would return
the union of supported systems instead of the intersection.
 2018-07-03 17:50:04 +02:00
Ludovic Courtès f3f1d0a557
guix system: Make 'init' idempotent again. 
This fixes a regression introduced in
df2f6400b1fbc282ef4d6dd7124ea1c17adc23c2: since the new
'register-path' (actually 'reset-timestamps') would make files
read-only, 'delete-file-recursively' would fail to delete them.  Thus,
re-running 'guix system init' on an already-populated store would fail
with a 'delete-file' EPERM.

* guix/scripts/system.scm (copy-item): Use 'lstat' instead of
'file-exists?'.  Call 'make-file-writable' on each directory below
DEST.
 2018-07-03 17:50:04 +02:00
Ludovic Courtès 90b144d22d
ui: Report file names in 'system-error' exceptions from 'delete-file'. 
* guix/ui.scm (delete-file): New error-reporting wrapper.
 2018-07-03 17:50:04 +02:00
Ludovic Courtès e5e5119855
database: 'reset-timestamps' now correctly handles symlinks. 
* guix/store/database.scm (reset-timestamps): Use 'utime' with
AT_SYMLINK_NOFOLLOW for symlinks.
 2018-07-03 17:50:04 +02:00
Ludovic Courtès 25c7ff6a3e
syscalls: Define AT_SYMLINK_NOFOLLOW et al. 
* guix/build/syscalls.scm (AT_FDCWD, AT_SYMLINK_NOFOLLOW, AT_REMOVEDIR)
(AT_SYMLINK_FOLLOW, AT_NO_AUTOMOUNT, AT_EMPTY_PATH): New variables.
* tests/syscalls.scm ("utime with AT_SYMLINK_NOFOLLOW"): New test.
 2018-07-03 17:50:04 +02:00
Ludovic Courtès a5b34d9d24
deduplication: Remove 'false-if-system-error', now unused. 
* guix/store/deduplication.scm (false-if-system-error): Remove.
 2018-07-03 17:50:04 +02:00
Ricardo Wurmus 13f5eb3494
gnu: pigx-bsseq: Update to 0.0.10. 
* gnu/packages/bioinformatics.scm (pigx-bsseq): Update to 0.0.10.
[arguments]: Remove "wrap-executable" phase.
 2018-07-03 17:33:51 +02:00
Ricardo Wurmus c7d5cd6ca5
gnu: pigx-rnaseq: Update to 0.0.4. 
* gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.0.4.
[arguments]: Remove "wrap-executable" phase.
 2018-07-03 16:20:28 +02:00
Ricardo Wurmus 29cbf8178f
gnu: pigx-chipseq: Update to 0.0.20. 
* gnu/packages/bioinformatics.scm (pigx-chipseq): Update to 0.0.20.
 2018-07-03 16:20:28 +02:00
Paul Garlick 631bc3a666
gnu: ikiwiki: Include auto setup files in output. 
* gnu/packages/web.scm(ikiwiki)[arguments]: Add patch-Makefile phase.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-07-03 15:45:41 +02:00
Peter Mikkelsen abf3a33178
gnu: emacs-use-package: Update to commit da8c9e2. 
This update is needed because the release tarball from github does not
contain all the files needed for us to build the package.

* gnu/packages/emacs.scm (emacs-use-package): Update to commit da8c9e2.
[source]: change to git.
[arguments]: Enable tests.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-07-03 15:45:41 +02:00
Peter Mikkelsen b5f746d2da
gnu: Add emacs-atom-one-dark-theme. 
* gnu/packages/emacs.scm (emacs-atom-one-dark-theme): New variable

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-07-03 15:45:41 +02:00
Marius Bakke 27b73b4999
gnu: libuninameslist: Update to 20180701. 
* gnu/packages/fontutils.scm (libuninameslist): Update to 20180701.
[source]: Change URI to use release tarball.  Remove FILE-NAME.
[native-inputs]: Remove.
 2018-07-03 15:45:40 +02:00
Marius Bakke b19c92ef7e
gnu: libuninameslist: Correct license. 
* gnu/packages/fontutils.scm (libuninameslist)[license]: Remove GPL2.  Add
BSD-3 and X11-STYLE.
 2018-07-03 15:45:40 +02:00
Danny Milosavljevic 74ba3a6830
gnu: Add vsftpd. 
* gnu/packages/ftp.scm (vsftpd): New variable.
 2018-07-03 15:32:51 +02:00
Rutger Helling 4786f51576
gnu: vkd3d: Add vulkan-headers. 
* gnu/packages/vulkan.scm (vkd3d)[inputs]: Add vulkan-headers.
 2018-07-03 11:23:47 +02:00
Rutger Helling 4108886b09
gnu: vkquake: Add vulkan-headers. 
* gnu/packages/games.scm (vkquake)[inputs]: Add vulkan-headers.
 2018-07-03 11:23:47 +02:00
Rutger Helling 08899ee91b
gnu: mpv: Add vulkan-headers. 
* gnu/packages/video.scm (mpv)[inputs]: Add vulkan-headers.
 2018-07-03 11:23:47 +02:00
Rutger Helling b1eb1ba99c
gnu: vulkan-loader: Update to 1.1.77.0. 
* gnu/packages/vulkan.scm (vulkan-loader): Update to 1.1.77.0.
[inputs]: Add 'vulkan-headers.
[home-page]: Correct URL.
 2018-07-03 11:23:47 +02:00
Rutger Helling cf09bed4f5
gnu: Add vulkan-headers. 
* gnu/packages/vulkan.scm (vulkan-headers): New variable.
 2018-07-03 11:23:47 +02:00
Rutger Helling 940c2c5c14
gnu: openrct2: Update to 0.2.0. 
* gnu/packages/games.scm (openrct2): Update to 0.2.0.
[configure-flags]: Add -DDOWNLOAD_OBJECTS=OFF configure flag.
[arguments]: Add 'fixgcc7, 'get-rid-of-errors phases.
[native-inputs]: Add gcc@7.
 2018-07-03 11:01:21 +02:00
Rutger Helling fab8d41c64
gnu: dolphin-emu: Update to commit 806c1ee. 
* gnu/packages/emulators.scm (dolphin-emu): Update to commit 806c1ee.
[source]: Don't delete removed externals.
[arguments]: Remove unused variables.
[inputs]: Add 'pugixml. Remove 'wxwidgets-gtk2-3.1.
 2018-07-03 09:13:55 +02:00
Oleg Pykhalov a6a2ef27a3
gnu: Add keynav. 
* gnu/packages/xorg.scm (keynav): New variable.
 2018-07-03 07:29:30 +03:00
Oleg Pykhalov ae6fa00af0
import: elpa: Check if 'fetch-elpa-package' rest argument is null. 
* guix/import/elpa.scm (fetch-elpa-package): Check if 'rest' is null.
 2018-07-03 07:19:13 +03:00
Oleg Pykhalov 3a15d0aa9c
bash completion: Complete files names after 'guix weather -m'. 
* etc/completion/bash/guix (_guix_complete): Complete files names after 'guix
weather -m'.
 2018-07-03 06:58:51 +03:00
Oleg Pykhalov 9b0a755f64
bash completion: Complete files names after 'guix build -L'. 
* etc/completion/bash/guix (_guix_complete): Complete files names after 'guix
build -L'.
 2018-07-03 06:58:51 +03:00