1a49a10a94
gnu: fftw: Factorize creation of the --enable-threads variant.
...
* gnu/packages/algebra.scm (pthread-variant): New procedure.
(fftw-with-threads, fftwf-with-threads): Use it.
2017-01-02 14:54:24 +01:00
7355634db3
gnu: Disambiguate packages with the same name.
...
* gnu/packages/algebra.scm (fftw-with-threads, fftwf-with-threads): Add
'name' field.
* gnu/packages/llvm.scm (llvm-for-extempore): Likewise.
2017-01-02 14:54:24 +01:00
9af076245f
gnu: gfortran: Remove non-'eq?' duplicate of gfortran@4.9.
...
* gnu/packages/gcc.scm (gfortran): Turn into an alias for GFORTRAN-4.9.
2017-01-02 14:54:24 +01:00
1b5ea0922f
gnu: python-s3transfer: Update to 0.1.10.
...
* gnu/packages/python.scm (python-s3transfer): Update to 0.1.10.
2017-01-02 08:37:26 +01:00
1f89fb1691
gnu: python-greenlet: Update to 0.4.11.
...
* gnu/packages/python.scm (python-greenlet): Update to 0.4.11.
2017-01-02 08:37:25 +01:00
3753f2e6e9
gnu: python-mako: Update to 1.0.6.
...
* gnu/packages/python.scm (python-mako): Update to 1.0.6.
2017-01-02 08:37:25 +01:00
af27e845e1
gnu: awscli: Update to 1.11.35.
...
* gnu/packages/python.scm (awscli): Update to 1.11.35.
2017-01-02 08:37:24 +01:00
bbb99d6b37
gnu: python-werkzeug: Update to 0.11.15.
...
* gnu/packages/python.scm (python-werkzeug): Update to 0.11.15.
2017-01-02 08:37:23 +01:00
27f9148e1d
gnu: python-backports-abc: Update to 0.5.
...
* gnu/packages/python.scm (python-backports-abc): Update to 0.5.
2017-01-02 08:37:23 +01:00
d79fa7da1b
gnu: python-decorator: Update to 4.0.10.
...
* gnu/packages/python.scm (python-decorator): Update to 4.0.10.
2017-01-02 08:37:22 +01:00
819939cb94
gnu: python-pycparser: Use ‘modify-phases’ syntax.
...
* gnu/packages/python.scm (python-pycparser)[arguments]: Use
‘modify-phases’.
2017-01-02 08:37:21 +01:00
5043b20dcd
gnu: python-pycparser: Update to 2.17.
...
* gnu/packages/python.scm (python-pycparser): Update to 2.17.
2017-01-02 08:28:28 +01:00
0d48ff811f
gnu: beets: Build with Python 3.
...
* gnu/packages/music.scm (beets)[arguments]: Build with python@3.
(native-inputs): Use Python-2 variants of all inputs.
(inputs): Use Python-2 variants of all inputs. Remove python-pyechonest.
2017-01-01 21:06:32 -05:00
27ccefc3d2
gnu: beets: Update to 1.4.2.
...
* gnu/packages/music.scm (beets): Update to 1.4.2.
2017-01-01 21:06:24 -05:00
2e161eafd8
gnu: python-pyicu: Update to 1.9.5.
...
* gnu/packages/python.scm (python-pyicu, python2-pyicu): Update to 1.9.5.
[source]: Use pypi-uri.
2017-01-01 20:15:06 -05:00
9a93f57473
gnu: yosys: Update to 0.7.
...
* gnu/packages/fpga.scm (yosys): Update to 0.7.
Signed-off-by: Leo Famulari <leo@famulari.name>
2017-01-01 20:06:43 -05:00
f90f6b683e
gnu: yosys: Add xdot functionality.
...
* gnu/packages/fpga.scm (yosys)[inputs]: Add xdot, graphviz and psmisc.
[arguments]: Add 'fix-paths' phase.
Signed-off-by: Leo Famulari <leo@famulari.name>
2017-01-01 20:06:43 -05:00
abdd28e8c1
gnu: Add xdot.
...
* gnu/packages/graphviz.scm (xdot): New variable.
Signed-off-by: Leo Famulari <leo@famulari.name>
2017-01-01 20:06:43 -05:00
231eddc88a
services: cuirass: Remove 'cuirass-service' procedure.
...
* gnu/services/cuirass.scm (<cuirass-configuration>)[specifications]:
Remove default value.
(cuirass-service): Remove.
* doc/guix.texi (Continuous Integration): Adjust accordingly.
2017-01-01 23:30:31 +01:00
8de938d59a
services: cuirass: Allow for gexps in specifications.
...
* gnu/services/cuirass.scm (<cuirass-configuration>)[specifications]:
Change default value to #~'().
(cuirass-shepherd-service): Remove conditional for "--specifications".
Use 'scheme-file' instead of 'plain-file'. Change file name to
"cuirass-specs.scm".
* doc/guix.texi (Continuous Integration): Change the example to use a
gexp where #:file refers to a file within Cuirass. Adjust
documentation.
2017-01-01 23:30:30 +01:00
7be13d0006
gnu: python-ndg-httpsclient: Use pypi-uri.
...
* gnu/packages/python.scm (python-ndg-httpsclient, python2-ndg-httpsclient)
[source]: Use pypi-uri.
2017-01-01 17:01:32 -05:00
5dbeccf5b4
gnu: diffoscope: Embed tool references.
...
Fixes <http://bugs.gnu.org/25315 >.
* gnu/packages/package-management.scm (diffoscope)[inputs]: Add
colordiff and vim.
[arguments]: Add "embed-tool-references" build phase to embed references
to "colordiff", "xxd", and "readelf".
2017-01-01 21:53:50 +01:00
ed88dd4512
gnu: mariadb: Update to 10.1.20.
...
* gnu/packages/databases.scm (mariadb): Update to 10.1.20.
Signed-off-by: Leo Famulari <leo@famulari.name>
2017-01-01 14:51:04 -05:00
e63b19f509
gnu: mysql: Update to 5.7.17.
...
* gnu/packages/databases.scm (mysql): Update to 5.7.17.
Signed-off-by: Leo Famulari <leo@famulari.name>
2017-01-01 14:45:23 -05:00
395bbfdbea
gnu: Add propeller-development-suite.
...
* gnu/packages/embedded.scm (propeller-development-suite): New variable.
2017-01-01 13:56:28 +01:00
3ebc86d9bd
gnu: Add spinsim.
...
* gnu/packages/embedded.scm (spinsim): New variable.
2017-01-01 13:56:28 +01:00
0a7860c438
gnu: Add spin2cpp.
...
* gnu/packages/embedded.scm (spin2cpp): New variable.
2017-01-01 13:56:28 +01:00
c6b96af794
gnu: Add propeller-load.
...
* gnu/packages/embedded.scm (propeller-load): New variable.
2017-01-01 13:56:28 +01:00
150e0a1ec6
gnu: Add openspin.
...
* gnu/packages/embedded.scm (openspin): New variable.
2017-01-01 13:56:27 +01:00
eb88fbafcd
gnu: Add propeller-toolchain.
...
* gnu/packages/embedded.scm (propeller-toolchain): New variable.
2017-01-01 13:56:27 +01:00
0d0079b2c5
gnu: Add proplib.
...
* gnu/packages/embedded.scm (proplib): New variable.
2017-01-01 13:56:27 +01:00
68cb27840e
gnu: Add propeller-gcc.
...
* gnu/packages/embedded.scm (propeller-gcc): New variable.
2017-01-01 13:56:27 +01:00
2d7c92134e
gnu: Add propeller-binutils.
...
* gnu/packages/embedded.scm (propeller-binutils): New variable.
2017-01-01 13:56:27 +01:00
6f5b1c9107
gnu: Add dummy linker for propeller-elf.
...
* gnu/packages/bootstrap.scm (glibc-dynamic-linker): Add case for
propeller-elf.
2017-01-01 13:56:27 +01:00
c26ba570cc
gnu: clisp: Remove timestamps.
...
* gnu/packages/lisp.scm (clisp)[arguments]: Add "remove-timestamps"
phase to remove "__DATE__" and "__TIME__".
2017-01-01 13:55:50 +01:00
636c77d066
gnu: clisp: Use modify-phases syntax.
...
* gnu/packages/lisp.scm (clisp)[arguments]: Use modify-phases syntax.
2017-01-01 13:55:50 +01:00
c50dc711a1
gnu: manaplus: Update to 1.6.12.24.
...
* gnu/packages/games.scm (manaplus): Update to 1.6.12.24.
2017-01-01 11:47:08 +03:00
25d84d3122
gnu: python-dendropy: Update to 4.2.0.
...
* gnu/packages/bioinformatics.scm (python-dendropy): Update to 4.2.0.
[source]: Remove patch.
(python2-dendropy)[source]: Use the same source as python-dendropy.
* gnu/packages/patches/python-dendropy-exclude-failing-tests.patch: Remove
file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2017-01-01 16:47:47 +10:00
322a583fcf
gnu: diamond: Update to 0.8.31.
...
* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.31.
2017-01-01 16:47:47 +10:00
7fc2d377d1
gnu: nagios: Update to 4.2.4 [fixes CVE-2016-{9565,9566}].
...
* gnu/packages/monitoring.scm (nagios): Update to 4.2.4.
[native-inputs]: New field.
2016-12-31 20:02:59 +01:00
b13a5b4d16
gnu: python-graphql-relay: Update to 0.4.5.
...
* gnu/packages/python.scm (python-graphql-relay): Update to 0.4.5.
2016-12-31 16:51:56 +01:00
0c315fb394
gnu: python-freezegun: Update to 0.3.8.
...
* gnu/packages/python.scm (python-freezegun): Update to 0.3.8.
2016-12-31 16:51:56 +01:00
234ade2d7b
gnu: python-ply: Update to 3.9.
...
* gnu/packages/python.scm (python-ply): Update to 3.9.
[source]: Use pypi-uri.
2016-12-31 16:51:55 +01:00
ab0c342924
gnu: python-pyquery: Update to 1.2.17.
...
* gnu/packages/python.scm (python-pyquery): Update to 1.2.17.
2016-12-31 16:51:55 +01:00
42734b9a88
gnu: python-click-log: Update to 0.1.8.
...
* gnu/packages/python.scm (python-click-log): Update to 0.1.8.
2016-12-31 16:51:54 +01:00
ae476d01da
gnu: python-ndg-httpsclient: Update to 0.4.2.
...
* gnu/packages/python.scm (python-ndg-httpsclient): Update to 0.4.2.
2016-12-31 16:51:54 +01:00
f165648e1b
gnu: python-ipykernel: Update to 4.5.2.
...
* gnu/packages/python.scm (python-ipykernel): Update to 4.5.2.
2016-12-31 16:51:53 +01:00
45cc957c72
gnu: python-jupyter-core: Update to 4.2.1.
...
* gnu/packages/python.scm (python-jupyter-core): Update to 4.2.1.
2016-12-31 16:51:53 +01:00
594358f5b6
gnu: python2-fastlmm: Update to 0.2.26.
...
* gnu/packages/python.scm (python2-fastlmm): Update to 0.2.26.
2016-12-31 16:51:40 +01:00
a5f92ca04f
gnu: python-pytz: Update to 2016.10.
...
* gnu/packages/python.scm (python-pytz): Update to 2016.10.
2016-12-31 16:36:20 +01:00
bf5e4bc42a
gnu: python-pyyaml: Update to 3.12.
...
* gnu/packages/python.scm (python-pyyaml): Update to 3.12.
[source]: Use pypi-uri.
2016-12-31 15:27:24 +01:00
7d2e758df5
gnu: python-pygments: Update to 2.1.3.
...
* gnu/packages/python.scm (python-pygments): Update to 2.1.3.
2016-12-31 15:27:23 +01:00
c055a37c8c
gnu: tiled: Update to 0.18.0.
...
* gnu/packages/game-development.scm (tiled): Update to 0.18.0.
2016-12-30 21:45:51 -05:00
da62a4a19e
gnu: mc: Partially fix absolute file paths.
...
Partially fixes <http://bugs.gnu.org/25273 >.
* gnu/packages/mc.scm (mc)[arguments]: Add new phase 'fix-absolutism.
This substitutes absolute file paths with functional file paths.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-12-31 01:44:04 +01:00
0f391063d9
gnu: pius: Update to 2.2.2-0.891687c.
...
* gnu/packages/gnupg.scm (pius): Update to 2.2.2-0.891687c.
[inputs]: Change GNUPG-2.0 to GNUPG (2.1).
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-12-31 01:44:04 +01:00
68415aa4e1
gnu: libtermkey: Update to 0.19.
...
* gnu/packages/terminals.scm (libtermkey): Update to 0.19.
Co-authored-by: Leo Famulari <leo@famulari.name>
2016-12-30 16:15:25 -05:00
858b9afeaf
gnu: libpng: Mention CVE-2016-10087.
...
* gnu/packages/patches/libpng-fix-null-ptr-dereference.patch: Rename to ...
* gnu/packages/patches/libpng-CVE-2016-10087.patch: ... this.
* gnu/local.mk (dist_patch_DATA): Adjust.
* gnu/packages/image.scm (libpng/fixed)[source]: Use renamed patch.
2016-12-30 14:33:21 -05:00
4037e5f52b
gnu: linux-libre@4.1: Update to 4.1.37.
...
* gnu/packages/linux.scm (linux-libre-4.1): Update to 4.1.37.
2016-12-30 04:26:11 -05:00
a29929b32c
gnu: multiqc: Update to 0.9.
...
Suggested by Raoul Bonnal <ilpuccio.febo@gmail.com>.
* gnu/packages/bioinformatics.scm (multiqc): Update to 0.9.
[origin]: Add patch.
* gnu/packages/patches/multiqc-fix-git-subprocess-error.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
2016-12-30 17:22:43 +10:00
95d7d0c57f
gnu: elogind: Enable ACL support.
...
* gnu/packages/freedesktop.scm (elogind) [inputs]: Add acl.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2016-12-29 23:42:23 +01:00
3547a5effe
services: Add libmtp's udev rules to '%desktop-services'.
...
Suggested by Chris Marusich <cmmarusich@gmail.com>.
* gnu/services/desktop.scm (%desktop-services): Add 'mtp' service via
call to 'simple-service'.
2016-12-29 23:35:42 +01:00
87b5209558
gnu: mpd: Install systemd service files.
...
* gnu/packages/mpd.scm (mpd)[arguments]: Add 'install-service-files' phase.
2016-12-29 17:28:34 -05:00
76b64381cb
gnu: r-genomicfeatures: Update to 1.26.2.
...
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.26.2.
2016-12-29 22:24:12 +01:00
2f642e5229
gnu: r-biostrings: Update to 2.42.1.
...
* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.42.1.
2016-12-29 22:24:11 +01:00
72c2693b9e
gnu: r-limma: Update to 3.30.7.
...
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.30.7.
2016-12-29 22:24:11 +01:00
5796af9981
gnu: r-variantannotation: Update to 1.20.2.
...
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.20.2.
2016-12-29 22:24:11 +01:00
5d3acc0b36
gnu: r-edger: Update to 3.16.5.
...
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.16.5.
2016-12-29 22:24:11 +01:00
81a17b61e7
gnu: r-genomeinfodb: Update to 1.10.1.
...
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.10.1.
2016-12-29 22:24:11 +01:00
54d9b568fc
gnu: r-iranges: Update to 2.8.1.
...
* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.8.1.
2016-12-29 22:24:11 +01:00
86fc9c4a2c
gnu: r-s4vectors: Update to 0.12.1.
...
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.12.1.
2016-12-29 22:24:11 +01:00
c8ad8b6976
gnu: r-biocstyle: Update to 2.2.1.
...
* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.2.1.
2016-12-29 22:24:10 +01:00
007ee80277
gnu: r-deseq2: Update to 1.14.1.
...
* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.14.1.
2016-12-29 22:24:10 +01:00
d0f0579e6f
gnu: r-annotate: Update to 1.52.1.
...
* gnu/packages/bioinformatics.scm (r-annotate): Update to 1.52.1.
[propagated-inputs]: Add r-rcurl.
2016-12-29 22:24:10 +01:00
a57495e27a
gnu: khard: Update to 0.11.3.
...
* gnu/packages/mail.scm (khard): Update to 0.11.3.
[arguments]: Build with python instead of python-2. Remove
'disable-egg-compression' phase.
[propagated-inputs]: Don't use python-2 variants of propagated-inputs.
2016-12-29 16:12:13 -05:00
35bb2ff88a
gnu: r-rsqlite: Update to 1.1-1.
...
* gnu/packages/statistics.scm (r-rsqlite): Update to 1.1-1.
[propagated-inputs]: Add r-bh, r-memoise, r-plogr, and r-rcpp.
2016-12-29 21:49:13 +01:00
28c041afe8
gnu: Add r-plogr.
...
* gnu/packages/statistics.scm (r-plogr): New variable.
2016-12-29 21:49:13 +01:00
ab607061cd
gnu: r-hmisc: Update to 4.0-1.
...
* gnu/packages/statistics.scm (r-hmisc): Update to 4.0-1.
[propagated-inputs]: Remove r-cluster, r-foreign, r-lattice, r-nnet, and
r-rpart; add r-base64.
2016-12-29 21:49:12 +01:00
0811f0f9d2
gnu: Add r-base64.
...
* gnu/packages/statistics.scm (r-base64): New variable.
2016-12-29 21:49:12 +01:00
ca380feb37
gnu: r-rmarkdown: Update to 1.3.
...
* gnu/packages/statistics.scm (r-rmarkdown): Update to 1.3.
[propagated-inputs]: Remove r-tibble; add r-rprojroot.
2016-12-29 21:49:12 +01:00
046e27e3f5
gnu: Add r-rprojroot.
...
* gnu/packages/statistics.scm (r-rprojroot): New variable.
2016-12-29 21:49:12 +01:00
a8e45b3240
gnu: r-rcpparmadillo: Update to 0.7.600.1.0.
...
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.7.600.1.0.
* gnu/packages/maths.scm (armadillo-for-rcpparmadillo): Update to
7.600.1.
2016-12-29 21:49:12 +01:00
b1c1f4d012
gnu: armadillo: Update to 7.600.2.
...
* gnu/packages/maths.scm (armadillo): Update to 7.600.2.
2016-12-29 21:49:12 +01:00
c729d3dc0e
gnu: r-zoo: Update to 1.7-14.
...
* gnu/packages/statistics.scm (r-zoo): Update to 1.7-14.
[propagated-inputs]: Remove r-lattice.
2016-12-29 21:49:11 +01:00
53941eb7a5
gnu: r-fastcluster: Update to 1.1.22.
...
* gnu/packages/statistics.scm (r-fastcluster): Update to 1.1.22.
2016-12-29 21:49:11 +01:00
3a181dc46e
gnu: r-plotly: Update to 4.5.6.
...
* gnu/packages/statistics.scm (r-plotly): Update to 4.5.6.
2016-12-29 21:49:11 +01:00
54aa6eb6ee
gnu: r-r-rsp: Update to 0.40.0.
...
* gnu/packages/statistics.scm (r-r-rsp): Update to 0.40.0.
2016-12-29 21:49:11 +01:00
1a44753b95
gnu: r-r-utils: Update to 2.5.0.
...
* gnu/packages/statistics.scm (r-r-utils): Update to 2.5.0.
2016-12-29 21:49:11 +01:00
62350c0797
gnu: r-coda: Update to 0.19-1.
...
* gnu/packages/statistics.scm (r-coda): Update to 0.19-1.
[propagated-inputs]: Remove r-lattice.
2016-12-29 21:49:11 +01:00
3607afbe4c
gnu: r-chron: Update to 2.3-48.
...
* gnu/packages/statistics.scm (r-chron): Update to 2.3-48.
2016-12-29 21:49:11 +01:00
eaec5506ad
gnu: r-knitr: Update to 1.15.1.
...
* gnu/packages/statistics.scm (r-knitr): Update to 1.15.1.
[propagated-inputs]: Remove r-formatr.
2016-12-29 21:49:10 +01:00
fd7810d323
gnu: r-bh: Update to 1.62.0-1.
...
* gnu/packages/statistics.scm (r-bh): Update to 1.62.0-1.
2016-12-29 21:49:10 +01:00
dd4ae2950a
gnu: r-svglite: Update to 1.2.0.
...
* gnu/packages/statistics.scm (r-svglite): Update to 1.2.0.
2016-12-29 21:49:10 +01:00
48a87bbe3b
gnu: r-gdtools: Update to 0.1.3.
...
* gnu/packages/statistics.scm (r-gdtools): Update to 0.1.3.
2016-12-29 21:49:10 +01:00
ab01f1cdb1
gnu: r-ggplot2: Update to 2.2.0.
...
* gnu/packages/statistics.scm (r-ggplot2): Update to 2.2.0.
[propagated-inputs]: Remove r-proto and r-svglite; add r-lazyeval and
r-tibble.
2016-12-29 21:49:10 +01:00
b94b03b7fa
gnu: r-scales: Update to 0.4.1.
...
* gnu/packages/statistics.scm (r-scales): Update to 0.4.1.
2016-12-29 21:49:10 +01:00
8a8fc31c6a
gnu: r-mgcv: Update to 1.8-16.
...
* gnu/packages/statistics.scm (r-mgcv): Update to 1.8-16.
2016-12-29 21:49:10 +01:00
421f7772b4
gnu: r-qtl: Update to 1.40-8.
...
* gnu/packages/bioinformatics.scm (r-qtl): Update to 1.40-8.
2016-12-29 21:49:09 +01:00
2a1c1b8074
gnu: r-hms: Update to 0.3.
...
* gnu/packages/statistics.scm (r-hms): Update to 0.3.
2016-12-29 21:49:09 +01:00
85455a08f4
gnu: r-git2r: Update to 0.17.0.
...
* gnu/packages/statistics.scm (r-git2r): Update to 0.17.0.
2016-12-29 21:49:09 +01:00
abb6f0540e
gnu: r-ade4: Update to 1.7-5
...
* gnu/packages/statistics.scm (r-ade4): Update to 1.7-5.
2016-12-29 21:49:09 +01:00
Ludovic Courtès