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Author SHA1 Message Date
Tobias Geerinckx-Rice
b9114ccbad
gnu: aircrack-ng: Update to 1.3. 
* gnu/packages/networking.scm (aircrack-ng): Update to 1.3.
[native-inputs]: Add autoconf, automake, libtool, and which.
[inputs]: Add libpcap.
[arguments]: Use conventional --options in #:configure-flags.
Restore ‘configure’ phase. Add ‘patch-evalrev’ and customise ‘bootstrap’
phases. Simplify ‘absolutize-tools’ phase.
 2018-09-09 14:50:34 +02:00
Tobias Geerinckx-Rice
6930ea33c9
gnu: aircrack-ng: Use HTTPS. 
* gnu/packages/networking.scm (aircrack-ng)[source, home-page]: Use HTTPS.
 2018-09-09 14:50:34 +02:00
宋文武
d7f99b3b76
gnu: perl: Improve description. 
Fixes <https://bug.gnu.org/32650>.

* gnu/packages/perl.scm (perl)[description]: Use description from 'perlintro'.
 2018-09-09 19:11:52 +08:00
Ludovic Courtès
4ab6a2f23d
tests: base: Add Guile-Gcrypt & co. to the search path. 
Fixes a regression introduced in
ca71942445, whereby (gcrypt hash) would
not be found in the system under test, leading to a failure of the
"/run/current-system is a GC root" test.

* gnu/tests/base.scm (run-basic-test)[guix&co]: New variable.
[test]: Add all of GUIX&CO to %LOAD-PATH.
 2018-09-08 23:02:01 +02:00
Ludovic Courtès
e80c725db7
services: nginx: 'stop' returns #f. 
Previously we'd return #t, which the Shepherd would consider a failure
to stop the service.

* gnu/services/web.scm (nginx-shepherd-service): In 'nginx-action',
return #f when stopping the service.
 2018-09-08 23:02:00 +02:00
Ludovic Courtès
985975ae80
services: nginx: Don't read PID file when passed a custom config file. 
Fixes <https://bugs.gnu.org/32665>.

* gnu/services/web.scm (nginx-shepherd-service): Check whether FILE is
true and don't read the PID file if it is; use 'read-pid-file' instead
of a potentially endless loop.
 2018-09-08 23:02:00 +02:00
Jan Nieuwenhuizen
c665774a1c
gnu: mes: Update to 0.17.1. 
* gnu/packages/patches/mes-nyacc-0.86.0.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/mes.scm (mes): Update to 0.17.1, depend on latest Nyacc 0.86.0.
(nyacc-for-mes): Remove.
 2018-09-08 20:36:30 +02:00
Jan Nieuwenhuizen
445ecce923
gnu: nyacc: Update to 0.86.0. 
* gnu/packages/patches/nyacc-binary-literals.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/mes.scm (nyacc): Update to 0.86.0, add patch.
 2018-09-08 20:36:30 +02:00
Benjamin Slade
39b5d8fd9d
gnu: Add frotz, frotz-dumb-terminal, and frotz-sdl. 
* gnu/packages/games.scm (frotz, frotz-dumb-terminal, frotz-sdl): New
variables.

Signed-off-by: Kei Kebreau <kkebreau@posteo.net>
 2018-09-08 13:41:10 -04:00
Mark H Weaver
090e3768e8
gnu: linux-libre: Update to 4.18.6. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.18.6.
(%linux-libre-hash): Update hash.
 2018-09-07 21:05:14 -04:00
Mark H Weaver
4be8fdd3cc
gnu: linux-libre@4.14: Update to 4.14.68. 
* 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
Mark H Weaver
ddb419ce04
gnu: linux-libre@4.9: Update to 4.9.125. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.125.
 2018-09-07 21:02:30 -04:00
Mark H Weaver
48d17ba1d3
gnu: linux-libre@4.4: Update to 4.4.154. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.154.
 2018-09-07 21:01:48 -04:00
Ludovic Courtès
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
Ludovic Courtès
9f1f200c04
gnu: diffoscope: Update to 100. 
* gnu/packages/package-management.scm (diffoscope): Update to 100.
 2018-09-07 17:59:16 +02:00
Ludovic Courtès
afdd1555c4
gnu: indent: Add version 2.2.12. 
* gnu/packages/code.scm (indent-2.2.12): New variable.
 2018-09-07 17:57:04 +02:00
Ludovic Courtès
6b4f99102c
gnu: gdb: Update to 8.2. 
* gnu/packages/gdb.scm (gdb): Update to 8.2.
 2018-09-07 17:55:55 +02:00
Ludovic Courtès
15214828a5
gnu: guile-json: Update to 1.2.0. 
* gnu/packages/guile.scm (guile-json): Update to 1.2.0.
[license]: Change to GPL3+.
 2018-09-07 17:55:51 +02:00
pimi
214452ffd3
gnu: Add r-ggformula. 
* gnu/packages/cran.scm (r-ggformula): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-07 11:40:06 +02:00
pimi
c61f7bc543
gnu: Add r-mosaiccore. 
* gnu/packages/cran.scm (r-mosaiccore): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-07 11:40:06 +02:00
pimi
77b33e0ede
gnu: Add r-ggstance. 
gnu/packages/cran.scm (r-ggstance): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-07 11:40:06 +02:00
pimi
12da2a5e58
gnu: Add r-abctools. 
* gnu/packages/cran.scm (r-abctools): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-07 11:40:06 +02:00
pimi
cadc10a513
gnu: Add r-abcrf. 
* gnu/packages/cran.scm (r-abcrf): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-07 11:40:06 +02:00
pimi
40c10917bc
gnu: Add r-abcp2. 
* gnu/packages/cran.scm (r-abcp2): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-07 11:40:06 +02:00
Alex Branham
12498b59e7
gnu: emacs-ess: Update to 17.11. 
* 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
Ludovic Courtès
1540075c79
vm: Make UUID computation really deterministic. 
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
Tobias Geerinckx-Rice
0012e0dd56
gnu: knot: Update to 2.7.2. 
* gnu/packages/dns.scm (knot): Update to 2.7.2.
 2018-09-07 03:01:40 +02:00
Leo Famulari
91cc2a38de
gnu: Wireshark: Update to 2.6.3 [fixes CVE-2018-{14994,16056,16057,16058}]. 
* gnu/packages/networking.scm (wireshark): Update to 2.6.3.
 2018-09-06 17:05:42 -04:00
Leo Famulari
1e066f0706
gnu: curl: Update replacement to 7.61.1 [fixes CVE-2018-14618]. 
* 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
Kei Kebreau
21f5f351fb
gnu: libgme: Update to 0.6.2. 
* gnu/packages/music.scm (libgme): Update to 0.6.2.
[native-inputs]: Add gcc-4.9.
 2018-09-06 11:01:52 -04:00
Ludovic Courtès
7df945656c
services: hpcguix-web: Set SSL_CERT_DIR. 
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
Eric Brown
f66be84d08
gnu: gfortran, gcc-objc, gcc-objc++: Add version 8. 
* 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
Ludovic Courtès
b290a631a0
gnu: guile-present: Install .go files to libdir. 
* gnu/packages/plotutils.scm (guile-present)[source](modules, snippet):
Remove.
 2018-09-06 10:49:42 +02:00
Ludovic Courtès
89874fd156
gnu: guile-charting: Install .go files to libdir. 
* gnu/packages/plotutils.scm (guile-charting)[source](modules, snippet):
Remove.
 2018-09-06 10:48:44 +02:00
Ludovic Courtès
b3ca2d8883
gnu: hpcguix-web: Update to 9ff40fc. 
* 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
Ludovic Courtès
96d6c41dfa
gnu: guile-commonmark: Install .go files to libdir. 
* 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
Ricardo Wurmus
d53aeeafcc
Add missing use-modules clause. 
This is a follow-up to commit 5dfe491290.
Sorry!

* gnu/packages/bioinformatics.scm, gnu/packages/graph.scm: Use (gnu packages
bioconductor).
 2018-09-06 04:53:32 +02:00
Tobias Geerinckx-Rice
79b283e433
gnu: ccache: Update to 3.4.3. 
* 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
Tobias Geerinckx-Rice
d83477adf9
gnu: font-fira-code: Update to 1.205. 
* gnu/packages/fonts.scm (font-fira-code): Update to 1.205.
 2018-09-06 02:33:47 +02:00
Tobias Geerinckx-Rice
a5c70c2e0e
gnu: libmpdclient: Update to 2.15. 
* gnu/packages/mpd.scm (libmpdclient): Update to 2.15.
 2018-09-06 02:33:47 +02:00
Ricardo Wurmus
00a43cb81c
gnu: pigx-scrnaseq: Use latest version of Pandoc. 
* 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
Ricardo Wurmus
c2b4f81e51
gnu: pigx-bsseq: Use latest version of Pandoc. 
* 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
Ricardo Wurmus
7cd40c8c5d
gnu: pigx-chipseq: Use latest version of Pandoc. 
* 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
Ricardo Wurmus
ca248f1db9
gnu: pigx-rnaseq: Use latest version of Pandoc. 
* 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
Ricardo Wurmus
dff5640a59
gnu: r-rcas: Use standard version of ghc-pandoc-citeproc. 
* 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
Ricardo Wurmus
f33a4748b7
gnu: r-modelmetrics: Update to 1.2.0. 
* 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
Ricardo Wurmus
0d279d607a
gnu: r-robustbase: Update to 0.93-2. 
* gnu/packages/statistics.scm (r-robustbase): Update to 0.93-2.
 2018-09-05 20:03:09 +02:00
Ricardo Wurmus
8e499d756a
gnu: r-rann: Update to 2.6. 
* gnu/packages/statistics.scm (r-rann): Update to 2.6.
 2018-09-05 20:03:09 +02:00
Ricardo Wurmus
314e8e763f
gnu: r-ggthemes: Update to 4.0.1. 
* 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
Ricardo Wurmus
e5db6890ad
gnu: r-ztable: Update to 0.2.0. 
* 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
Ricardo Wurmus
f0519c8fae
gnu: r-zoo: Update to 1.8-3. 
* gnu/packages/statistics.scm (r-zoo): Update to 1.8-3.
 2018-09-05 20:03:08 +02:00
Ricardo Wurmus
8da236a377
gnu: r-gtools: Update to 3.8.1. 
* gnu/packages/statistics.scm (r-gtools): Update to 3.8.1.
 2018-09-05 20:03:08 +02:00
Ricardo Wurmus
c28d8d8db0
gnu: r-kernlab: Update to 0.9-27. 
* gnu/packages/machine-learning.scm (r-kernlab): Update to 0.9-27.
 2018-09-05 20:03:08 +02:00
Ricardo Wurmus
c0608f815c
gnu: r-adaptivesparsity: Update to 1.6. 
* 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
Ricardo Wurmus
a207bca2ad
gnu: r-codedepends: Move from cran to bioconductor. 
* 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
Ricardo Wurmus
5dfe491290
gnu: r-graph: Move from bioinformatics to bioconductor. 
* 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
Ricardo Wurmus
caaec88651
gnu: r-ggpubr: Update to 0.1.8. 
* 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
Ricardo Wurmus
a9b02ddd73
gnu: r-codedepends: Update to 0.6.5. 
* gnu/packages/cran.scm (r-codedepends): Update to 0.6.5.
[propagated-inputs]: Add r-graph.
 2018-09-05 20:03:08 +02:00
Ricardo Wurmus
2e6909baf0
gnu: r-later: Update to 0.7.4. 
* gnu/packages/cran.scm (r-later): Update to 0.7.4.
 2018-09-05 20:03:08 +02:00
Ricardo Wurmus
12132229b0
gnu: r-maptools: Update to 0.9-3. 
* gnu/packages/cran.scm (r-maptools): Update to 0.9-3.
 2018-09-05 20:03:08 +02:00
Ricardo Wurmus
7a96c4e0a0
gnu: r-fnn: Update to 1.1.2.1. 
* gnu/packages/cran.scm (r-fnn): Update to 1.1.2.1.
 2018-09-05 20:03:08 +02:00
Ricardo Wurmus
19950821d7
gnu: r-heatmaply: Update to 0.15.2. 
* gnu/packages/cran.scm (r-heatmaply): Update to 0.15.2.
 2018-09-05 20:03:08 +02:00
Ricardo Wurmus
1fe9919a57
gnu: r-tsa: Update to 1.2. 
* gnu/packages/cran.scm (r-tsa): Update to 1.2.
[propagated-inputs]: Remove r-tseries.
 2018-09-05 20:03:08 +02:00
Ricardo Wurmus
be5642eb69
gnu: r-statnet-common: Update to 4.1.4. 
* gnu/packages/cran.scm (r-statnet-common): Update to 4.1.4.
 2018-09-05 20:03:08 +02:00
Ricardo Wurmus
e32368c130
gnu: r-metap: Update to 1.0. 
* gnu/packages/cran.scm (r-metap): Update to 1.0.
[propagated-inputs]: Add r-rdpack.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
d97d98e142
gnu: r-tinytex: Update to 0.8. 
* gnu/packages/cran.scm (r-tinytex): Update to 0.8.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
6f5b157e3d
gnu: r-pillar: Update to 1.3.0. 
* gnu/packages/cran.scm (r-pillar): Update to 1.3.0.
[propagated-inputs]: Add r-fansi.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
69bf449bf1
gnu: r-xts: Update to 0.11-0. 
* gnu/packages/cran.scm (r-xts): Update to 0.11-0.
[native-inputs]: Remove.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
1b3b2a72ee
gnu: r-mice: Update to 3.3.0. 
* gnu/packages/cran.scm (r-mice): Update to 3.3.0.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
a7265593d3
gnu: r-pan: Update to 1.6. 
* gnu/packages/cran.scm (r-pan): Update to 1.6.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
e7630cc931
gnu: r-jomo: Update to 2.6-4. 
* gnu/packages/cran.scm (r-jomo): Update to 2.6-4.
[propagated-inputs]: Add r-ordinal.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
b8f6e2f82a
gnu: Add r-ordinal. 
* gnu/packages/cran.scm (r-ordinal): New variable.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
dc66835226
gnu: Add r-ucminf. 
* gnu/packages/cran.scm (r-ucminf): New variable.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
45c156bf81
gnu: r-broom: Update to 0.5.0. 
* gnu/packages/cran.scm (r-broom): Update to 0.5.0.
[propagated-inputs]: Add r-backports, r-dplyr, r-purrr, and r-tibble; remove
r-plyr and r-psych.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
2d2b95d151
gnu: r-ipred: Update to 0.9-7. 
* gnu/packages/cran.scm (r-ipred): Update to 0.9-7.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
c73752cac5
gnu: r-pls: Update to 2.7-0. 
* gnu/packages/cran.scm (r-pls): Update to 2.7-0.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
b00e8ae771
gnu: r-glue: Update to 1.3.0. 
* gnu/packages/cran.scm (r-glue): Update to 1.3.0.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
b72de5b3f6
gnu: r-callr: Update to 3.0.0. 
* gnu/packages/cran.scm (r-callr): Update to 3.0.0.
[propagated-inputs]: Add r-base64enc.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
e3c1e93e35
gnu: r-reprex: Update to 0.2.0. 
* gnu/packages/cran.scm (r-reprex): Update to 0.2.0.
[propagated-inputs]: Add r-clipr, r-rlang, and r-withr.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
2cdd9d4f83
gnu: r-reticulate: Update to 1.10. 
* gnu/packages/cran.scm (r-reticulate): Update to 1.10.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
cb96d81be4
gnu: r-doby: Update to 4.6-2. 
* gnu/packages/cran.scm (r-doby): Update to 4.6-2.
 2018-09-05 20:03:07 +02:00
Ricardo Wurmus
589bd1c426
gnu: Add r-flextable. 
* gnu/packages/cran.scm (r-flextable): New variable.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
78f2c08c0b
gnu: r-rmarkdown: Use latest version of Pandoc. 
* gnu/packages/statistics.scm (r-rmarkdown)[propagated-inputs]: Replace
"ghc-pandoc-1" with "ghc-pandoc".
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
f9f4578ba0
Revert "gnu: ghc-tasty: Update to 1.1.0.3." 
This reverts commit 3ad6b89090.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
90708323a1
Revert "gnu: ghc-base-compat: Update to 0.10.4." 
This reverts commit 0fa2c552fc.

We may not upgrade base-compat at this point because we haven't upgraded the
default GHC yet.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
0fd7d59dc3
gnu: Add r-moonbook. 
* gnu/packages/cran.scm (r-moonbook): New variable.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
aaed237d1b
gnu: Add r-nortest. 
* gnu/packages/cran.scm (r-nortest): New variable.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
1f560b9cdb
gnu: Add r-sjmisc. 
* gnu/packages/cran.scm (r-sjmisc): New variable.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
cfc0631433
gnu: Add r-sjlabelled. 
* gnu/packages/cran.scm (r-sjlabelled): New variable.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
de059e4bd3
gnu: Add r-prediction. 
* gnu/packages/cran.scm (r-prediction): New variable.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
bfee9ce88f
gnu: Add r-snakecase. 
* gnu/packages/cran.scm (r-snakecase): New variable.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
c183fa2688
gnu: Add r-officer. 
* gnu/packages/cran.scm (r-officer): New variable.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
5dbe7aa920
gnu: r-googlesheets: Update to 0.3.0. 
* gnu/packages/statistics.scm (r-googlesheets): Update to 0.3.0.
[propagated-inputs]: Add r-tibble.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
88cb7aa9e7
gnu: r-plotly: Update to 4.8.0. 
* gnu/packages/statistics.scm (r-plotly): Update to 4.8.0.
[propagated-inputs]: Add r-promises and r-rlang.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
195eec737c
gnu: r-matrixstats: Update to 0.54.0. 
* gnu/packages/statistics.scm (r-matrixstats): Update to 0.54.0.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
e2a2c3378e
gnu: r-r-rsp: Update to 0.43.0. 
* gnu/packages/statistics.scm (r-r-rsp): Update to 0.43.0.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
eefa7c7f3d
gnu: r-r-utils: Update to 2.7.0. 
* gnu/packages/statistics.scm (r-r-utils): Update to 2.7.0.
 2018-09-05 20:03:06 +02:00
Ricardo Wurmus
e926159eb3
gnu: r-e1071: Update to 1.7-0. 
* gnu/packages/statistics.scm (r-e1071): Update to 1.7-0.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
2aafa73a94
gnu: r-xml: Update to 3.98-1.16. 
* gnu/packages/statistics.scm (r-xml): Update to 3.98-1.16.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
41f6685388
gnu: r-rcpparmadillo: Update to 0.9.100.5.0. 
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.9.100.5.0.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
19cb93be55
gnu: r-git2r: Update to 0.23.0. 
* gnu/packages/statistics.scm (r-git2r): Update to 0.23.0.
[native-inputs]: Add pkg-config.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
2848c52c5e
gnu: r-roxygen2: Update to 6.1.0. 
* gnu/packages/statistics.scm (r-roxygen2): Update to 6.1.0.
[propagated-inputs]: Add r-pkgload and r-purrr.
[native-inputs]: Add r-knitr.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
9b7e8df85b
gnu: r-ade4: Update to 1.7-13. 
* gnu/packages/statistics.scm (r-ade4): Update to 1.7-13.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
7f38b31ecb
gnu: r-xtable: Update to 1.8-3. 
* gnu/packages/statistics.scm (r-xtable): Update to 1.8-3.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
6b02569f1d
gnu: r-dbplyr: Update to 1.2.2. 
* gnu/packages/statistics.scm (r-dbplyr): Update to 1.2.2.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
3299bc1c5e
gnu: r-yaml: Update to 2.2.0. 
* gnu/packages/statistics.scm (r-yaml): Update to 2.2.0.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
2a96a093ec
gnu: r-evaluate: Update to 0.11. 
* gnu/packages/statistics.scm (r-evaluate): Update to 0.11.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
3bf390279d
gnu: r-scales: Update to 1.0.0. 
* gnu/packages/statistics.scm (r-scales): Update to 1.0.0.
[propagated-inputs]: Remove r-dichromat and r-plyr.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
97c81cc174
gnu: r-stringi: Update to 1.2.4. 
* gnu/packages/statistics.scm (r-stringi): Update to 1.2.4.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
e362be8e89
gnu: Add r-pkgload. 
* gnu/packages/cran.scm (r-pkgload): New variable.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
4f8247b54b
gnu: Add r-pkgbuild. 
* gnu/packages/cran.scm (r-pkgbuild): New variable.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
1ec1989f80
gnu: r-httpuv: Update to 1.4.5. 
* gnu/packages/web.scm (r-httpuv): Update to 1.4.5.
[native-inputs]: Add pkg-config.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
f077174178
gnu: r-scran: Update to 1.8.4. 
* gnu/packages/bioinformatics.scm (r-scran): Update to 1.8.4.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
8e44ff0c0d
gnu: r-scater: Update to 1.8.4. 
* gnu/packages/bioinformatics.scm (r-scater): Update to 1.8.4.
 2018-09-05 20:03:05 +02:00
Ricardo Wurmus
e69c07e61a
gnu: r-hdf5array: Update to 1.8.1. 
* gnu/packages/bioinformatics.scm (r-hdf5array): Update to 1.8.1.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
16527f1cbc
gnu: r-ggbio: Update to 1.28.5. 
* gnu/packages/bioinformatics.scm (r-ggbio): Update to 1.28.5.
[propagated-inputs]: Add r-rlang.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
70daf9362b
gnu: r-biovizbase: Update to 1.28.2. 
* gnu/packages/bioinformatics.scm (r-biovizbase): Update to 1.28.2.
[propagated-inputs]: Add r-rlang.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
ff7c7d62f4
gnu: r-keggrest: Update to 1.20.1. 
* gnu/packages/bioinformatics.scm (r-keggrest): Update to 1.20.1.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
3c55304688
gnu: r-edaseq: Update to 2.14.1. 
* gnu/packages/bioinformatics.scm (r-edaseq): Update to 2.14.1.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
eb251fe524
gnu: r-igraph: Update to 1.2.2. 
* gnu/packages/graph.scm (r-igraph): Update to 1.2.2.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
c273bcdfce
gnu: r-diffusionmap: Update to 1.1-0.1. 
* gnu/packages/graph.scm (r-diffusionmap): Update to 1.1-0.1.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
6f6aef80e3
gnu: r-seurat: Update to 2.3.4. 
* gnu/packages/bioinformatics.scm (r-seurat): Update to 2.3.4.
[source]: Remove snippet.
[arguments]: Remove.
[native-inputs]: Remove.
[propagated-inputs]: Remove r-caret, r-diffusionmap, r-fnn, r-gdata, r-ranger,
r-stringr, r-tclust, and rvgam; add r-httr.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
07bd90ce90
gnu: r-msnbase: Update to 2.6.3. 
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.6.3.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
4ee8c37cca
gnu: r-maldiquant: Update to 1.18. 
* gnu/packages/bioinformatics.scm (r-maldiquant): Update to 1.18.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
48b21f8b6b
gnu: r-seqminer: Update to 6.1. 
* gnu/packages/bioinformatics.scm (r-seqminer): Update to 6.1.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
ad2ed8d01f
gnu: r-genomicfeatures: Update to 1.32.2. 
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.32.2.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
f2e79823c6
gnu: r-rtracklayer: Update to 1.40.6. 
* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.40.6.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
aea1b6fb8a
gnu: r-delayedarray: Update to 0.6.5. 
* gnu/packages/bioinformatics.scm (r-delayedarray): Update to 0.6.5.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
3e61c2a8b1
gnu: r-rsamtools: Update to 1.32.3. 
* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 1.32.3.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
a02340058c
gnu: r-biocparallel: Update to 1.14.2. 
* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.14.2.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
1d56c79f86
gnu: r-genomicranges: Update to 1.32.6. 
* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.32.6.
 2018-09-05 20:03:04 +02:00
Ricardo Wurmus
688cb08527
gnu: r-limma: Update to 3.36.3. 
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.36.3.
 2018-09-05 20:03:03 +02:00
Ricardo Wurmus
33a103a543
gnu: r-variantannotation: Update to 1.26.1. 
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.26.1.
 2018-09-05 20:03:03 +02:00
Ricardo Wurmus
1adf4596a6
gnu: r-edger: Update to 3.22.3. 
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.22.3.
 2018-09-05 20:03:03 +02:00
Ricardo Wurmus
5728d9c6c0
gnu: r-iranges: Update to 2.14.11. 
* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.14.11.
 2018-09-05 20:03:03 +02:00
Ricardo Wurmus
3c04375614
gnu: r-biocviews: Update to 1.48.3. 
* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.48.3.
 2018-09-05 20:03:03 +02:00
Ricardo Wurmus
ce0e762bf9
gnu: r-annotationforge: Update to 1.22.2. 
* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.22.2.
 2018-09-05 20:03:03 +02:00
Ricardo Wurmus
65050163e0
gnu: r-chippeakanno: Update to 3.14.1. 
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.14.1.
 2018-09-05 20:03:03 +02:00
Ricardo Wurmus
88e4ed55d6
gnu: Add r-clipr. 
* gnu/packages/cran.scm (r-clipr): New variable.
 2018-09-05 20:03:03 +02:00
Ricardo Wurmus
6a8469755c
gnu: Add r-rdpack. 
* gnu/packages/cran.scm (r-rdpack): New variable.
 2018-09-05 20:03:03 +02:00
Ricardo Wurmus
dd954dd743
gnu: Add r-gbrd. 
* gnu/packages/cran.scm (r-gbrd): New variable.
 2018-09-05 20:03:03 +02:00
Ricardo Wurmus
53718658d2
gnu: Add r-polynom. 
* gnu/packages/cran.scm (r-polynom): New variable.
 2018-09-05 20:03:03 +02:00
Ricardo Wurmus
356230da4a
gnu: Add r-fansi. 
* gnu/packages/cran.scm (r-fansi): New variable.
 2018-09-05 20:03:03 +02:00
Ludovic Courtès
3b0153bd82
gnu: guix-daemon: Add dependency on Guile-Gcrypt. 
This is a followup to 53166aec98, which
made Guile-Gcrypt a hard dependency.

* gnu/packages/package-management.scm (guix-daemon)[inputs]: Add
GUILE-GCRYPT.
 2018-09-05 15:48:04 +02:00
Ludovic Courtès
7903f00a74
gnu: cuirass: Add dependency on Guile-Gcrypt. 
This is a followup to 53166aec98, which
added a hard dependency of Guix on Guile-Gcrypt.

* gnu/packages/ci.scm (cuirass)[inputs]: Add GUILE-GCRYPT.
[arguments]: In 'wrap-program' phase, use 'string-join' to compute
'mods'.  Define 'objs' for use in GUILE_LOAD_COMPILED_PATH, and take
objects from lib/guile/X.Y/site-ccache.
 2018-09-05 15:35:54 +02:00
Ludovic Courtès
5e3082df1c
gnu: guile-fibers: Install .go files to "…/site-ccache". 
* gnu/packages/guile.scm (guile-fibers)[arguments]: New field.
 2018-09-05 15:35:54 +02:00
Eric Bavier
3f5e6ccf9b
slepc: Upgrade to 3.9.2. 
* gnu/packages/maths.scm (slepc): Upgrade to 3.9.2.
 2018-09-05 08:10:38 -05:00
Eric Bavier
c15be1280e
petsc: Upgrade to 3.9.3. 
* gnu/packages/maths.scm (petsc): Upgrade to 3.9.3.
[arguments]: Remove unnecessary configure flags.
 2018-09-05 08:10:37 -05:00
Eric Bavier
a3a99e27bb
petsc: Move example code to "examples" output. 
* gnu/packages/maths.scm (petsc)[arguments]: New 'move-examples' phase.
 2018-09-05 08:10:37 -05:00
Eric Bavier
b26e4f26ff
gnu: Add SUNDIALS. 
* gnu/packages/maths.scm (sundials, sundials-openmpi): New variables.
 2018-09-05 08:10:31 -05:00
Alex Vong
296f091b48
gnu: packages: mp3: Use HTTPS where possible. 
* gnu/packages/mp3.scm (libmad)[home-page]: Use HTTPS.
(libid3tag)[home-page]: Likewise.
(mp3info)[source, home-page]: Likewise.
(mpg123)[source]: Likewise.
(libmpcdec)[source, home-page]: Likewise.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
 2018-09-05 20:56:55 +08:00
Alex Vong
998100e6e8
gnu: eyed3: Update home page. 
* gnu/packages/mp3.scm (eyed3)[home-page]: Update to redirected HTTPS URL.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
 2018-09-05 20:56:55 +08:00
Ludovic Courtès
53166aec98
gnu: guix: Update to 3d43017. 
* gnu/packages/package-management.scm (guix): Update to 3d43017.
 2018-09-05 14:31:48 +02:00
Ludovic Courtès
185948b8a8
gnu: xorg: Fix typo. 
* gnu/packages/xorg.scm: Fix typo in Benjamin's email address.
 2018-09-05 13:57:43 +02:00
Ricardo Wurmus
4fd2622df8
gnu: python-tables: Update to 3.4.4. 
* gnu/packages/python.scm (python-tables): Update to 3.4.4.
 2018-09-05 12:01:23 +02:00
Ricardo Wurmus
8afdeb8751
gnu: python-pybigwig: Update to 0.3.12. 
* gnu/packages/bioinformatics.scm (python-pybigwig): Update to 0.3.12.
[propagated-inputs]: Add python-numpy.
 2018-09-05 12:01:23 +02:00
Ricardo Wurmus
0d7974c376
gnu: libbigwig: Update to 0.4.2. 
* gnu/packages/bioinformatics.scm (libbigwig): Update to 0.4.2.
[source]: Fetch from git.
[arguments]: Disable tests; remove build phases "disable-curl-test" and
"create-target-dirs".
[native-inputs]: Add python-2.
 2018-09-05 12:01:23 +02:00
Ricardo Wurmus
ca1dc4c76a
gnu: nss-pam-ldapd: Update to 0.9.10. 
* gnu/packages/openldap.scm (nss-pam-ldapd): Update to 0.9.10.
 2018-09-05 11:44:52 +02:00
Rutger Helling
fefe17b088
gnu: dolphin-emu: Update to commit 5f0d825. 
* gnu/packages/emulators.scm (dolphin-emu): Update to commit 5f0d825.
 2018-09-05 10:23:20 +02:00
Leo Famulari
fcf4841c0e
gnu: Zsh: Patch some tests that began failing in 5.6. 
* gnu/packages/shells.scm (zsh)[arguments]: Patch the tests rather than deleting
them.
 2018-09-04 18:34:01 -04:00
Leo Famulari
95681e5586
gnu: Zsh: Update to 5.6 [fixes CVE-2018-{0502,13259}]. 
* gnu/packages/shells.scm (zsh): Update to 5.6.
[arguments]: Skip some tests.
 2018-09-04 18:10:53 -04:00
Ludovic Courtès
ca71942445
Switch to Guile-Gcrypt. 
This removes (guix hash) and (guix pk-crypto), which now live as part of
Guile-Gcrypt (version 0.1.0.)

* guix/gcrypt.scm, guix/hash.scm, guix/pk-crypto.scm,
tests/hash.scm, tests/pk-crypto.scm: Remove.
* configure.ac: Test for Guile-Gcrypt.  Remove LIBGCRYPT and
LIBGCRYPT_LIBDIR assignments.
* m4/guix.m4 (GUIX_ASSERT_LIBGCRYPT_USABLE): Remove.
* README: Add Guile-Gcrypt to the dependencies; move libgcrypt as
"required unless --disable-daemon".
* doc/guix.texi (Requirements): Likewise.
* gnu/packages/bash.scm, guix/derivations.scm, guix/docker.scm,
guix/git.scm, guix/http-client.scm, guix/import/cpan.scm,
guix/import/cran.scm, guix/import/crate.scm, guix/import/elpa.scm,
guix/import/gnu.scm, guix/import/hackage.scm,
guix/import/texlive.scm, guix/import/utils.scm, guix/nar.scm,
guix/pki.scm, guix/scripts/archive.scm,
guix/scripts/authenticate.scm, guix/scripts/download.scm,
guix/scripts/hash.scm, guix/scripts/pack.scm,
guix/scripts/publish.scm, guix/scripts/refresh.scm,
guix/scripts/substitute.scm, guix/store.scm,
guix/store/deduplication.scm, guix/tests.scm, tests/base32.scm,
tests/builders.scm, tests/challenge.scm, tests/cpan.scm,
tests/crate.scm, tests/derivations.scm, tests/gem.scm,
tests/nar.scm, tests/opam.scm, tests/pki.scm,
tests/publish.scm, tests/pypi.scm, tests/store-deduplication.scm,
tests/store.scm, tests/substitute.scm: Adjust imports.
* gnu/system/vm.scm: Likewise.
(guile-sqlite3&co): Rename to...
(gcrypt-sqlite3&co): ... this.  Add GUILE-GCRYPT.
(expression->derivation-in-linux-vm)[config]: Remove.
(iso9660-image)[config]: Remove.
(qemu-image)[config]: Remove.
(system-docker-image)[config]: Remove.
* guix/scripts/pack.scm: Adjust imports.
(guile-sqlite3&co): Rename to...
(gcrypt-sqlite3&co): ... this.  Add GUILE-GCRYPT.
(self-contained-tarball)[build]: Call 'make-config.scm' without
 #:libgcrypt argument.
(squashfs-image)[libgcrypt]: Remove.
[build]: Call 'make-config.scm' without #:libgcrypt.
(docker-image)[config, json]: Remove.
[build]: Add GUILE-GCRYPT to the extensions  Remove (guix config) from
the imported modules.
* guix/self.scm (specification->package): Remove "libgcrypt", add
"guile-gcrypt".
(compiled-guix): Remove #:libgcrypt.
[guile-gcrypt]: New variable.
[dependencies]: Add it.
[*core-modules*]: Remove #:libgcrypt from 'make-config.scm' call.
Add #:extensions.
[*config*]: Remove #:libgcrypt from 'make-config.scm' call.
(%dependency-variables): Remove %libgcrypt.
(make-config.scm): Remove #:libgcrypt.
* build-aux/build-self.scm (guile-gcrypt): New variable.
(make-config.scm): Remove #:libgcrypt.
(build-program)[fake-gcrypt-hash]: New variable.
Add (gcrypt hash) to the imported modules.  Adjust load path
assignments.
* gnu/packages/package-management.scm (guix)[propagated-inputs]: Add
GUILE-GCRYPT.
[arguments]: In 'wrap-program' phase, add GUILE-GCRYPT to the search
path.
 2018-09-04 17:25:11 +02:00
Alex Vong
1bf758767d
gnu: Add emacs-picpocket. 
* gnu/packages/emacs.scm (emacs-picpocket): New public variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-04 15:39:43 +02:00
Paul Garlick
71ca16b58d
gnu: petsc-openmpi: Configure with support for hdf5 data format. 
* gnu/packages/maths.scm (petsc-openmpi)[inputs]: Add
hdf5-parallel-openmpi.
[arguments]: Add '--with-hdf5-include' and '--with-hdf5-lib'
flags.  Add 'set-test-environment' phase.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-04 15:22:48 +02:00
Jonathan Brielmaier
b50658fe8a
gnu: kicad: Update to 5.0.0. 
* gnu/packages/engineering.scm (kicad): Update to 5.0.0.
[source]: Change from git to url-fetch.
[arguments]: Remove now unneeded build version parameter.
[inputs]: Add opencascade-oce.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-04 15:02:59 +02:00
Arun Isaac
906a396bff
gnu: ghc-zlib: Enable tests. 
* gnu/packages/haskell.scm (ghc-zlib)[arguments]: Enable tests. Allow building
with newer tasty.
[native-inputs]: Add ghc-quickcheck, ghc-tasty, ghc-tasty-hunit and
ghc-tasty-quickcheck.
 2018-09-04 17:31:09 +05:30
Arun Isaac
6300ba5b66
gnu: ghc-integer-logarithms: Allow building with newer tasty. 
* gnu/packages/haskell.scm (ghc-integer-logarithms)[arguments]: Allow building
with newer tasty.
 2018-09-04 15:24:32 +05:30
Arun Isaac
8374cc4b05
gnu: ghc-tasty-ant-xml: Update to 1.1.4. 
* gnu/packages/haskell-check.scm (ghc-tasty-ant-xml): Update to 1.1.4.
 2018-09-04 15:21:56 +05:30
Arun Isaac
3ad6b89090
gnu: ghc-tasty: Update to 1.1.0.3. 
* gnu/packages/haskell-check.scm (ghc-tasty): Update to 1.1.0.3.
[inputs]: Add ghc-wcwidth.
(ghc-attoparsec-bootstrap, ghc-integer-logarithms-bootstrap,
ghc-scientific-bootstrap): New variables.
(ghc-wcwidth)[inputs]: Replace ghc-attoparsec with ghc-attoparsec-bootstrap.
(ghc-scientific)[inputs]: Replace ghc-integer-logarithms with
ghc-integer-logarithms-bootstrap.
(ghc-attoparsec)[inputs]: Replace ghc-scientific with
ghc-scientific-bootstrap.
 2018-09-04 12:15:17 +05:30
Arun Isaac
9c4b522f15
gnu: Add ghc-wcwidth. 
* gnu/packages/haskell.scm (ghc-wcwidth): New variable.
 2018-09-04 12:15:10 +05:30
Ludovic Courtès
fd95f37f36
Revert "gnu: perl: Add support for cross-compilation" 
This reverts commit 5108c18e7e, which was
accidentally committed.
 2018-09-03 23:49:12 +02:00
Raphaël Mélotte
5108c18e7e
gnu: perl: Add support for cross-compilation 
* gnu/packages/perl.scm (perl): use cross-libc when cross-compiling

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-03 23:41:08 +02:00
Benjamin Slade
38fe6449c0
gnu: Add transset-df. 
* gnu/packages/xorg.scm (transset-df): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-03 23:40:23 +02:00
Marius Bakke
c702749dfd
gnu: arpack-ng: Update to 3.6.2. 
* gnu/packages/maths.scm (arpack-ng): Update to 3.6.2.
 2018-09-03 19:09:01 +02:00
Marius Bakke
91bb495b85
gnu: arpack-ng: Drop redundant phase. 
* gnu/packages/maths.scm (arpack-ng)[arguments]: Remove.
 2018-09-03 19:09:01 +02:00
Marius Bakke
1f7d142000
gnu: python-matplotlib: Update to 2.2.3. 
* gnu/packages/python.scm (python-matplotlib): Update to 2.2.3.
 2018-09-03 19:09:00 +02:00
Marius Bakke
cbd7c65709
gnu: ppp: Return #t from all phases. 
* gnu/packages/samba.scm (ppp)[arguments]: Return #t from phase.
 2018-09-03 18:58:47 +02:00
Marius Bakke
84aa18ff7f
gnu: re2: Update to 2018-09-01. 
* gnu/packages/regex.scm (re2): Update to 2018-09-01.
 2018-09-03 18:58:47 +02:00
Marius Bakke
fcde1d27bb
gnu: openexr: Update to 2.3.0. 
* gnu/packages/graphics.scm (openexr): Update to 2.3.0.
[source](uri): Change to new download location.
[source](snippet): Remove workaround.
[source](patches): Remove.
* gnu/packages/patches/openexr-missing-samples.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
 2018-09-03 18:58:47 +02:00
Marius Bakke
1ae2c577a6
gnu: ilmbase: Update to 2.3.0. 
* gnu/packages/graphics.scm (ilmbase): Update to 2.3.0.
[source](uri): Change to new download location.
 2018-09-03 18:58:46 +02:00
Marius Bakke
9156206199
gnu: simplescreenrecorder: Build against modular Qt. 
* gnu/packages/video.scm (simplescreenrecorder)[inputs]: Remove QT.  Add
QTBASE and QTX11EXTRAS.
 2018-09-03 18:58:46 +02:00
Marius Bakke
65e686d6cb
Merge branch 'security-updates' 2018-09-03 18:58:20 +02:00
Efraim Flashner
a5896da34e
gnu: gnu-pw-mgr: Update to 2.4.2. 
* gnu/packages/gnu-pw-mgr.scm (gnu-pw-mgr): Update to 2.4.2.
 2018-09-03 19:34:24 +03:00
Tobias Geerinckx-Rice
38a8cd329d
gnu: python-nbxmpp: Update to 0.6.7. 
* gnu/packages/messaging.scm (python-nbxmpp): Update to 0.6.7.
 2018-09-03 18:21:43 +02:00
Tobias Geerinckx-Rice
b619b7f67b
gnu: libircclient: Update to 1.10. 
* gnu/packages/messaging.scm (libircclient): Update to 1.10.
 2018-09-03 18:21:43 +02:00
Tobias Geerinckx-Rice
cfcfc6ab62
Fix some typos. 
* doc/guix.texi (Sound Services, DNS Services): Fix typos.
* gnu/packages/cpp.scm (json-modern-cxx)[description]: Likewise.
* gnu/packages/emacs.scm (emacs-fancy-narrow)[synopsis, description]:
Likewise. Edit & mark up while we're here.
* gnu/packages/mail.scm (alot)[synopsis, description]: Ditto.
 2018-09-03 18:21:43 +02:00
Tobias Geerinckx-Rice
fb458bf3bc
gnu: sudo: Update to 1.8.25. 
* gnu/packages/admin.scm (sudo): Update to 1.8.25.
 2018-09-03 18:21:42 +02:00
Efraim Flashner
0cc6447669
gnu: python-efl: Update to 1.21.0. 
* gnu/packages/enlightenment.scm (python-efl): Update to 1.21.0.
[source]: Don't use pypi source.
[arguments]: Delete network tests.
 2018-09-03 17:32:44 +03:00
Efraim Flashner
290bef39f6
gnu: efl: Update to 1.21.0. 
* gnu/packages/enlightenment.scm (efl): Update to 1.21.0.
 2018-09-03 17:32:44 +03:00
Ricardo Wurmus
02ddafef55
gnu: python-scipy: Disable broken tests. 
* gnu/packages/python.scm (python-scipy)[arguments]: Skip two broken tests.
 2018-09-03 13:49:32 +02:00
Rutger Helling
26baaaf49b
gnu: c-toxcore: Update to 0.2.7. 
* gnu/packages/messaging.scm (c-toxcore): Update to 0.2.7.
 2018-09-03 08:22:51 +02:00
Rutger Helling
aa613d71ec
gnu: openrct2: Update to 0.2.1. 
* gnu/packages/games.scm (openrct2-objects): Update to 1.0.6.
* gnu/packages/games.scm (openrct2): Update to 0.2.1.
 2018-09-03 08:22:50 +02:00
Efraim Flashner
647465ace9
gnu: jellyfish: Update to 2.2.10. 
* gnu/packages/bioinformatics.scm (jellyfish): Update to 2.2.10.
[supported-systems]: Add aarch64-linux, mips64el-linux.
 2018-09-03 08:32:33 +03:00
Oleg Pykhalov
3910977823
gnu: monitoring.scm: Fix copyright line. 
This is a follow-up to ead46692ec.
 2018-09-02 19:18:16 +03:00
Alex Vong
2bd6ed9e4c
gnu: haskell-mode: Fix test failure. 
Fixes <https://bugs.gnu.org/31726>.

Thanks to Jack Hill <jackhill@jackhill.us> for exploring different solutions
at <https://debbugs.gnu.org/cgi/bugreport.cgi?bug=31726>.

* gnu/packages/patches/haskell-mode-unused-variables.patch,
gnu/packages/patches/haskell-mode-make-check.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/emacs.scm (haskell-mode)[source]: Use them.
[arguments]: Adjust 'pre-build' phase to embed file name.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-02 17:06:43 +02:00
Konrad Hinsen
b21a55a9f2
gnu: emacs-helpful: Update to 0.13. 
* gnu/packages/emacs.scm (emacs-helpful): Update to 0.13.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-02 16:58:06 +02:00
Konrad Hinsen
351b6463af
gnu: emacs-elisp-refs: Update to 1.3. 
* gnu/packages/emacs.scm (emacs-elisp-refs): Update to 1.3.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-02 16:56:22 +02:00
Ludovic Courtès
fe634eaf93
Add (guix describe) and use it to initialize '%package-search-path'. 
* guix/describe.scm: New file.
* Makefile.am (MODULES): Add it.
* gnu/packages.scm (%default-package-module-path): New variable.
(%package-module-path): Honor 'package-path-entries'.
* build-aux/update-NEWS.scm (main): Use %DEFAULT-PACKAGE-MODULE-PATH
instead of (last (%package-module-path)).
 2018-09-02 16:43:10 +02:00
Rutger Helling
87284c6b48
gnu: wine-staging: Update to 3.15. 
* gnu/packages/wine.scm (wine-staging): Update to 3.15.
 2018-09-02 08:53:03 +02:00
Rutger Helling
ab2e38e206
gnu: wine-staging-patchset-data: Update to 3.15. 
* gnu/packages/wine.scm (wine-staging-patchset-data): Update to 3.15.
 2018-09-02 08:53:03 +02:00