4be8fdd3cc
gnu: linux-libre@4.14: Update to 4.14.68.
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* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.68.
(%linux-libre-4.14-hash): Update hash.
2018-09-07 21:03:03 -04:00
ddb419ce04
gnu: linux-libre@4.9: Update to 4.9.125.
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* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.125.
2018-09-07 21:02:30 -04:00
48d17ba1d3
gnu: linux-libre@4.4: Update to 4.4.154.
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* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.154.
2018-09-07 21:01:48 -04:00
9b6c435564
services: 'instantiate-missing-services' reaches fixed point.
...
Fixes a bug whereby services indirectly depended on would not be
automatically instantiated.
* gnu/services.scm (instantiate-missing-services): Loop back when the
length of ADJUSTED is greater than that of INSTANCES.
* tests/services.scm ("instantiate-missing-services, indirect"): New test.
2018-09-07 23:00:39 +02:00
9f1f200c04
gnu: diffoscope: Update to 100.
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* gnu/packages/package-management.scm (diffoscope): Update to 100.
2018-09-07 17:59:16 +02:00
afdd1555c4
gnu: indent: Add version 2.2.12.
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* gnu/packages/code.scm (indent-2.2.12): New variable.
2018-09-07 17:57:04 +02:00
6b4f99102c
gnu: gdb: Update to 8.2.
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* gnu/packages/gdb.scm (gdb): Update to 8.2.
2018-09-07 17:55:55 +02:00
15214828a5
gnu: guile-json: Update to 1.2.0.
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* gnu/packages/guile.scm (guile-json): Update to 1.2.0.
[license]: Change to GPL3+.
2018-09-07 17:55:51 +02:00
214452ffd3
gnu: Add r-ggformula.
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* gnu/packages/cran.scm (r-ggformula): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
c61f7bc543
gnu: Add r-mosaiccore.
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* gnu/packages/cran.scm (r-mosaiccore): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
77b33e0ede
gnu: Add r-ggstance.
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gnu/packages/cran.scm (r-ggstance): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
12da2a5e58
gnu: Add r-abctools.
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* gnu/packages/cran.scm (r-abctools): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
cadc10a513
gnu: Add r-abcrf.
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* gnu/packages/cran.scm (r-abcrf): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
40c10917bc
gnu: Add r-abcp2.
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* gnu/packages/cran.scm (r-abcp2): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
12498b59e7
gnu: emacs-ess: Update to 17.11.
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* gnu/packages/emacs.scm (emacs-ess): Update to 17.11
[url]: Use github for https
[snippet]: update julia-mode substitution, only build info doc, bypass failing test
[propagated-inputs]: Add emacs-julia-mode
[description]: Mention that ESS supports Julia and JAGS (which replaces OpenBUGS)
[arguments]: Remove 'set-home' phase.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
1540075c79
vm: Make UUID computation really deterministic.
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Fixes <https://bugs.gnu.org/32652 >.
* gnu/system/vm.scm (operating-system-uuid)[service-name,
file-system-digest]: New procedures.
Map these over services and file systems and hash the result.
* tests/guix-system.sh: Add test.
2018-09-07 11:40:05 +02:00
0012e0dd56
gnu: knot: Update to 2.7.2.
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* gnu/packages/dns.scm (knot): Update to 2.7.2.
2018-09-07 03:01:40 +02:00
91cc2a38de
gnu: Wireshark: Update to 2.6.3 [fixes CVE-2018-{14994,16056,16057,16058}].
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* gnu/packages/networking.scm (wireshark): Update to 2.6.3.
2018-09-06 17:05:42 -04:00
1e066f0706
gnu: curl: Update replacement to 7.61.1 [fixes CVE-2018-14618].
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* gnu/packages/curl.scm (curl)[replacement]: Update to 7.61.1.
(curl-7.61.0): Replace variable with ...
(curl-7.61.1): ... new variable.
2018-09-06 17:02:52 -04:00
21f5f351fb
gnu: libgme: Update to 0.6.2.
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* gnu/packages/music.scm (libgme): Update to 0.6.2.
[native-inputs]: Add gcc-4.9.
2018-09-06 11:01:52 -04:00
7df945656c
services: hpcguix-web: Set SSL_CERT_DIR.
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Previously Git pulls over HTTPS would fail with:
guix/git.scm:132:7: In procedure update-cached-checkout:
Throw to key `git-error' with args `(#<<git-error> code: -17 message: "the SSL certificate is invalid" class: 16>)'.
* gnu/services/web.scm (hpcguix-web-shepherd-service): Pass
"SSL_CERT_DIR=/etc/ssl/certs".
* doc/guix.texi (Web Services): Mention certificates.
2018-09-06 13:49:06 +02:00
f66be84d08
gnu: gfortran, gcc-objc, gcc-objc++: Add version 8.
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* gnu/packages/gcc.scm (gfortran-8, gcc-objc-8, gcc-objc++-8): New
variables.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-06 11:12:40 +02:00
b290a631a0
gnu: guile-present: Install .go files to libdir.
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* gnu/packages/plotutils.scm (guile-present)[source](modules, snippet):
Remove.
2018-09-06 10:49:42 +02:00
89874fd156
gnu: guile-charting: Install .go files to libdir.
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* gnu/packages/plotutils.scm (guile-charting)[source](modules, snippet):
Remove.
2018-09-06 10:48:44 +02:00
b3ca2d8883
gnu: hpcguix-web: Update to 9ff40fc.
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* gnu/packages/web.scm (hpcguix-web): Update to 9ff40fc.
[arguments]: In 'wrap-program' phase, add guile-gcrypt, guile-git, and
guile-bytestructures to DEPS.
2018-09-06 10:46:07 +02:00
96d6c41dfa
gnu: guile-commonmark: Install .go files to libdir.
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* gnu/packages/guile.scm (guile-commonmark)[source](snippet): Change the
"modir = " and "godir = " line separately, allowing .go files to be
installed to $(libdir).
2018-09-06 10:43:01 +02:00
d53aeeafcc
Add missing use-modules clause.
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This is a follow-up to commit 5dfe491290
2018-09-06 04:53:32 +02:00
79b283e433
gnu: ccache: Update to 3.4.3.
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* gnu/packages/ccache.scm (ccache): Update to 3.4.3.
[arguments]: Remove obsolete 'munge-failing-test' phase.
2018-09-06 02:33:47 +02:00
d83477adf9
gnu: font-fira-code: Update to 1.205.
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* gnu/packages/fonts.scm (font-fira-code): Update to 1.205.
2018-09-06 02:33:47 +02:00
a5c70c2e0e
gnu: libmpdclient: Update to 2.15.
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* gnu/packages/mpd.scm (libmpdclient): Update to 2.15.
2018-09-06 02:33:47 +02:00
00a43cb81c
gnu: pigx-scrnaseq: Use latest version of Pandoc.
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* gnu/packages/bioinformatics.scm (pigx-scrnaseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
c2b4f81e51
gnu: pigx-bsseq: Use latest version of Pandoc.
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* gnu/packages/bioinformatics.scm (pigx-bsseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
7cd40c8c5d
gnu: pigx-chipseq: Use latest version of Pandoc.
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* gnu/packages/bioinformatics.scm (pigx-chipseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
ca248f1db9
gnu: pigx-rnaseq: Use latest version of Pandoc.
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* gnu/packages/bioinformatics.scm (pigx-rnaseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
dff5640a59
gnu: r-rcas: Use standard version of ghc-pandoc-citeproc.
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* gnu/packages/bioinformatics.scm (r-rcas)[native-inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc".
2018-09-05 20:03:09 +02:00
f33a4748b7
gnu: r-modelmetrics: Update to 1.2.0.
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* gnu/packages/statistics.scm (r-modelmetrics): Update to 1.2.0.
[propagated-inputs]: Add r-data-table.
2018-09-05 20:03:09 +02:00
0d279d607a
gnu: r-robustbase: Update to 0.93-2.
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* gnu/packages/statistics.scm (r-robustbase): Update to 0.93-2.
2018-09-05 20:03:09 +02:00
8e499d756a
gnu: r-rann: Update to 2.6.
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* gnu/packages/statistics.scm (r-rann): Update to 2.6.
2018-09-05 20:03:09 +02:00
314e8e763f
gnu: r-ggthemes: Update to 4.0.1.
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* gnu/packages/statistics.scm (r-ggthemes): Update to 4.0.1.
[propagated-inputs]: Remove r-assertthat and r-colorspace; add r-purrr,
r-stringr, and r-tibble.
2018-09-05 20:03:09 +02:00
e5db6890ad
gnu: r-ztable: Update to 0.2.0.
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* gnu/packages/statistics.scm (r-ztable): Update to 0.2.0.
[propagated-inputs]: Add r-flextable, r-magrittr, r-moonbook, r-officer,
r-rcolorbrewer, r-scales, and r-stringr.
2018-09-05 20:03:08 +02:00
f0519c8fae
gnu: r-zoo: Update to 1.8-3.
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* gnu/packages/statistics.scm (r-zoo): Update to 1.8-3.
2018-09-05 20:03:08 +02:00
8da236a377
gnu: r-gtools: Update to 3.8.1.
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* gnu/packages/statistics.scm (r-gtools): Update to 3.8.1.
2018-09-05 20:03:08 +02:00
c28d8d8db0
gnu: r-kernlab: Update to 0.9-27.
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* gnu/packages/machine-learning.scm (r-kernlab): Update to 0.9-27.
2018-09-05 20:03:08 +02:00
c0608f815c
gnu: r-adaptivesparsity: Update to 1.6.
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* gnu/packages/machine-learning.scm (r-adaptivesparsity): Update to 1.6.
[propagated-inputs]: Add r-mass and r-matrix.
2018-09-05 20:03:08 +02:00
a207bca2ad
gnu: r-codedepends: Move from cran to bioconductor.
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* gnu/packages/cran.scm (r-codedepends): Move from here...
* gnu/packages/bioconductor.scm (r-codedepends): ...to here.
2018-09-05 20:03:08 +02:00
5dfe491290
gnu: r-graph: Move from bioinformatics to bioconductor.
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* gnu/packages/bioinformatics.scm (r-graph): Move from here...
* gnu/packages/bioconductor.scm (r-graph): ...to here.
2018-09-05 20:03:08 +02:00
caaec88651
gnu: r-ggpubr: Update to 0.1.8.
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* gnu/packages/cran.scm (r-ggpubr): Update to 0.1.8.
[propagated-inputs]: Add r-glue and r-polynom.
2018-09-05 20:03:08 +02:00
a9b02ddd73
gnu: r-codedepends: Update to 0.6.5.
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* gnu/packages/cran.scm (r-codedepends): Update to 0.6.5.
[propagated-inputs]: Add r-graph.
2018-09-05 20:03:08 +02:00
2e6909baf0
gnu: r-later: Update to 0.7.4.
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* gnu/packages/cran.scm (r-later): Update to 0.7.4.
2018-09-05 20:03:08 +02:00
12132229b0
gnu: r-maptools: Update to 0.9-3.
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* gnu/packages/cran.scm (r-maptools): Update to 0.9-3.
2018-09-05 20:03:08 +02:00
Mark H Weaver