6bd27981f6
gnu: r-bookdown: Update to 0.5.
...
* gnu/packages/bioinformatics.scm (r-bookdown): Update to 0.5.
2017-09-01 15:11:56 +02:00
c62276b2fa
gnu: r-ksamples: Update to 1.2-7.
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* gnu/packages/cran.scm (r-ksamples): Update to 1.2-7.
2017-09-01 15:11:56 +02:00
28f2f89391
gnu: r-distillery: Update to 1.0-4.
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* gnu/packages/cran.scm (r-distillery): Update to 1.0-4.
2017-09-01 15:11:55 +02:00
f7b172187a
gnu: r-sp: Update to 1.2-5.
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* gnu/packages/cran.scm (r-sp): Update to 1.2-5.
2017-09-01 15:11:55 +02:00
bf958fcd63
gnu: r-ggally: Update to 1.3.2.
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* gnu/packages/cran.scm (r-ggally): Update to 1.3.2.
2017-09-01 15:11:55 +02:00
38ea6cfab4
gnu: r-reshape: Update to 0.8.7.
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* gnu/packages/cran.scm (r-reshape): Update to 0.8.7.
2017-09-01 15:11:54 +02:00
eeb5432802
gnu: r-powerlaw: Update to 0.70.1.
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* gnu/packages/cran.scm (r-powerlaw): Update to 0.70.1.
2017-09-01 15:11:54 +02:00
a5c2980486
gnu: r-circlize: Update to 0.4.1.
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* gnu/packages/cran.scm (r-circlize): Update to 0.4.1.
2017-09-01 15:11:54 +02:00
ea4d4f7616
gnu: r-shape: Update to 1.4.3.
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* gnu/packages/cran.scm (r-shape): Update to 1.4.3.
2017-09-01 15:11:53 +02:00
9077f6d9aa
gnu: r-tclust: Update to 1.3-1.
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* gnu/packages/statistics.scm (r-tclust): Update to 1.3-1.
2017-09-01 15:11:53 +02:00
347cab66b6
gnu: r-fastcluster: Update to 1.1.24.
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* gnu/packages/statistics.scm (r-fastcluster): Update to 1.1.24.
2017-09-01 15:11:52 +02:00
d574d6bcc2
gnu: r-rcpparmadillo: Update to 0.7.960.1.2.
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* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.7.960.1.2.
2017-09-01 15:11:52 +02:00
2dda8fca6f
gnu: r-plotrix: Update to 3.6-6.
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* gnu/packages/statistics.scm (r-plotrix): Update to 3.6-6.
2017-09-01 15:11:51 +02:00
7d60652ebe
gnu: r-httr: Update to 1.3.1.
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* gnu/packages/statistics.scm (r-httr): Update to 1.3.1.
[propagated-inputs]: Remove r-digest and r-stringr.
2017-09-01 15:11:51 +02:00
e3323e0707
gnu: r-commonmark: Update to 1.4.
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* gnu/packages/statistics.scm (r-commonmark): Update to 1.4.
2017-09-01 15:11:51 +02:00
5d84369bda
gnu: r-ade4: Update to 1.7-8.
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* gnu/packages/statistics.scm (r-ade4): Update to 1.7-8.
2017-09-01 15:11:50 +02:00
fb10c923b3
gnu: r-tibble: Update to 1.3.4.
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* gnu/packages/statistics.scm (r-tibble): Update to 1.3.4.
2017-09-01 15:11:50 +02:00
edd5fd7208
gnu: r-rlang: Update to 0.1.2.
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* gnu/packages/statistics.scm (r-rlang): Update to 0.1.2.
2017-09-01 15:11:49 +02:00
5a00ef0950
gnu: r-knitr: Update to 1.17.
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* gnu/packages/statistics.scm (r-knitr): Update to 1.17.
2017-09-01 15:11:49 +02:00
3949aef601
gnu: r-bh: Update to 1.65.0-1.
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* gnu/packages/statistics.scm (r-bh): Update to 1.65.0-1.
2017-09-01 15:11:49 +02:00
b93881b9c5
gnu: r-scales: Update to 0.5.0.
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* gnu/packages/statistics.scm (r-scales): Update to 0.5.0.
[propagated-inputs]: Add r-r6 and r-viridislite.
2017-09-01 15:11:48 +02:00
2d99a31607
gnu: r-mgcv: Update to 1.8-19.
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* gnu/packages/statistics.scm (r-mgcv): Update to 1.8-19.
2017-09-01 15:11:48 +02:00
fefe9f4753
gnu: r-matrix: Update to 1.2-11.
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* gnu/packages/statistics.scm (r-matrix): Update to 1.2-11.
2017-09-01 15:11:48 +02:00
3c2a5bf299
gnu: r-servr: Update to 0.7.
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* gnu/packages/web.scm (r-servr): Update to 0.7.
2017-09-01 15:11:47 +02:00
1cf306639c
gnu: php: Update to 7.1.9.
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* gnu/packages/php.scm (php): Update to 7.1.9.
2017-09-01 14:17:46 +02:00
dcf7a8a660
gnu: java-slf4j-api: Fix tests.
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* gnu/packages/java.scm (java-slf4j-api)[arguments]: Enable tests
Adjust the jar content to prevent a test failure.
2017-09-01 14:17:24 +02:00
5fe2a139df
gnu: djvulibre: Remove timestamps from .svgz files.
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* gnu/packages/djvu.scm (djvulibre)[arguments]: New field.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-09-01 11:05:32 +02:00
833ade67f1
gnu: Add emacs-tuareg.
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* gnu/packages/ocaml.scm (emacs-tuareg): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-09-01 10:39:55 +02:00
4735393a76
gnu: emacs-ebuild-mode: Update to 1.37.
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* gnu/packages/emacs.scm (emacs-ebuild-mode): Update to 1.37.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-09-01 10:34:50 +02:00
ab966b8f61
gnu: Add emacs-2048-game.
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* gnu/packages/emacs.scm (emacs-2048-game): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-09-01 10:34:36 +02:00
5c5ae46c00
packages: 'fold-packages' takes an optional 'modules' parameter.
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Suggested by Christopher Baines <mail@cbaines.net>.
* gnu/packages.scm (fold-packages): Add optional 'modules' parameter and
honor it.
2017-09-01 10:29:39 +02:00
fe55199542
scripts: Remove 'max-silent-time' from the default options.
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Fixes <http://bugs.gnu.org/27157 >.
Having a finite default `max-silent-time' value for scripts such as 'guix
environment' could lead to timeouts when building subtitutes; this was
undesirable.
This change also fixes client behavior to match the documentation, which
is that by default the daemon's settings are honored.
* guix/scripts/archive.scm (%default-options): Remove max-silent-time entry.
* guix/scripts/copy.scm (%default-options): Likewise.
* guix/scripts/environment.scm (%default-options): Likewise.
* guix/scripts/pack.scm (%default-options): Likewise.
* guix/scripts/package.scm (%default-options): Likewise.
* guix/scripts/pull.scm (%default-options): Likewise.
* guix/scripts/system.scm (%default-options): Likewise.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2017-09-01 10:29:39 +02:00
75690c9f6b
gnu: r-rcas: Correct license.
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* gnu/packages/bioinformatics.scm (r-rcas)[license]: Use correct license.
2017-09-01 10:26:31 +02:00
eda8f36cd6
gnu: r-rcas: Update to 1.3.3.
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* gnu/packages/bioinformatics.scm (r-rcas): Update to 1.3.3.
2017-09-01 10:26:30 +02:00
7d099cbe13
gnu: mysql: Enable tests on aarch64.
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* gnu/packages/databases.scm (mysql)[arguments]: Remove logic disabling
the tests on aarch64-linux.
2017-09-01 10:50:39 +03:00
f4bf420c84
gnu: vsearch: Update to 2.4.4.
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* gnu/packages/bioinformatics.scm (vsearch): Update to 2.4.4.
2017-09-01 14:45:57 +08:00
25bd1fc1c1
gnu: metabat: Update to 2.12.1.
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* gnu/packages/patches/metabat-remove-compilation-date.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
* gnu/packages/bioinformatics.scm (metabat): Update to 2.12.1.
[source]: Remove it. Use url-fetch.
2017-09-01 14:45:57 +08:00
43d01672a1
gnu: netcdf: Fix reproducibility issue; remove unneeded references.
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* 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
e464b4550e
gnu: hdf4: Avoid unneeded store references to compilers.
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* gnu/packages/maths.scm (hdf4) [arguments]: Add phase 'patch-settings to
truncate hashes of compiler store items.
2017-09-01 08:34:32 +02:00
fd0378a147
gnu: hdf5: Avoid unneeded store references to compilers.
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* gnu/packages/maths.scm (hdf5) [arguments]: Add phase to patch
"libhdf5.settings", removing references to the C/C++/Fortran compilers.
2017-09-01 08:34:31 +02:00
e3a1a1deda
gnu: hdf5: Add output for fortran interface.
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* 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.
2017-09-01 08:34:24 +02:00
a0596a2f27
gnu: python2-larch: Enable tests.
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* gnu/packages/patches/python2-larch-coverage-4.0a6-compatibility.patch: New
file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/python.scm (python2-larch)[source]: Use it.
[arguments]: Move 'check' phase to before 'build' phase.
2017-09-01 11:14:16 +05:30
f618086220
gnu: python2-ttystatus: Enable tests.
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* gnu/packages/python.scm (python2-ttystatus)[arguments]: Replace 'check'
phase with custom function.
2017-09-01 11:14:16 +05:30
689042e526
gnu: python2-cliapp: Enable tests.
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* gnu/packages/python.scm (python2-cliapp)[arguments]: Replace 'check' phase
with custom function.
2017-09-01 11:14:16 +05:30
fe36ecf5c8
gnu: linux-libre: Update to 4.12.10.
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* gnu/packages/linux.scm (%linux-libre-version): Update to 4.12.10.
(%linux-libre-hash): Update hash.
2017-09-01 00:31:55 -04:00
2131663a76
gnu: linux-libre@4.9: Update to 4.9.46.
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* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.46.
2017-09-01 00:31:16 -04:00
d215e41a26
gnu: linux-libre@4.4: Update to 4.4.85.
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* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.85.
2017-09-01 00:30:17 -04:00
1b3f5fc387
gnu: libxml2/fixed: Use patches from inherited package.
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This is a followup to 76fed2b3c4
2017-08-31 23:43:55 +02:00
0ff44ba464
gnu: graphicsmagick: Fix CVE-2017-{13775,13776,13777}.
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* gnu/packages/imagemagick.scm (graphicsmagick)[source]: Add patches.
* gnu/packages/patches/graphicsmagick-CVE-2017-13775.patch,
gnu/packages/patches/graphicsmagick-CVE-2017-13776+CVE-2017-13777.patch:
New files.
* gnu/local.mk (dist_patch_DATA): Register them.
2017-09-01 00:02:27 +03:00
d36212e94d
gnu: efl: Update to 1.20.3.
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* gnu/packages/enlightenment.scm (efl): Update to 1.20.3.
2017-09-01 00:02:25 +03:00
Ricardo Wurmus