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Author SHA1 Message Date
Ricardo Wurmus
e206de67b6
gnu: Add r-rgraphviz. 
* gnu/packages/graph.scm (r-rgraphviz): New variable.
 2017-10-22 12:12:42 +02:00
Ricardo Wurmus
1ab867bebb
gnu: Add r-pdist. 
* gnu/packages/cran.scm (r-pdist): New variable.
 2017-10-22 12:10:33 +02:00
Julien Lepiller
6efc999678
gnu: Update coq-interval to 3.3.0. 
* gnu/packages/ocaml.scm (coq-interval): Update to 3.3.0.
[inputs]: Add coq-bignums.
 2017-10-22 10:21:25 +02:00
Julien Lepiller
dbfb1a596a
gnu: Add coq-bignums. 
* gnu/packages/ocaml.scm (coq-bignums): New variable.
 2017-10-22 10:21:22 +02:00
Julien Lepiller
3ffd180cc5
gnu: Update coq-coquelicot to 3.0.1. 
* gnu/packages/ocaml.scm (coq-coquelicot): Update to 3.0.1.
 2017-10-22 10:21:19 +02:00
Julien Lepiller
2e331c9c43
gnu: Update coq-mathcomp to 1.6.2. 
* gnu/packages/ocaml.scm (coq-mathcomp): Update to 1..6.2.
 2017-10-22 10:21:16 +02:00
Julien Lepiller
b44f13e04c
gnu: Update coq-flocq to 2.6.0. 
* gnu/packages/ocaml.scm (coq-flocq): Update to 2.6.0.
 2017-10-22 10:21:14 +02:00
Julien Lepiller
6e4da73710
gnu: Update coq to 8.7.0. 
* gnu/packages/ocaml.scm (coq): Update to 8.7.0.
[build-system]: Use ocaml-build-system.
[inputs]: Add python-2.
[arguments]: Disable two failing tests.
 2017-10-22 10:21:11 +02:00
Julien Lepiller
07b4cd3a48
gnu: camlp5: install META file. 
* gnu/packages/ocaml.scm (camlp5) [phases]: New install-meta phase.
 2017-10-22 10:20:50 +02:00
Marius Bakke
3d679ab1e5
gnu: lame: Update to 3.100. 
* gnu/packages/mp3.scm (lame): Update to 3.100.
[source]: Don't hard-code version.
 2017-10-22 00:39:26 +02:00
Marius Bakke
28d0b52164
gnu: python-pyqt: Update to 5.9. 
* gnu/packages/qt.scm (python-pyqt): Update to 5.9.
 2017-10-21 22:38:55 +02:00
Marius Bakke
079e679219
gnu: python-sip: Update to 4.19.3. 
* gnu/packages/qt.scm (python-sip): Update to 4.19.3.
 2017-10-21 22:38:55 +02:00
Tobias Geerinckx-Rice
a4194d1684
gnu: rest: Update to 0.8.1. 
* gnu/packages/gnome.scm (rest): Update to 0.8.1.
 2017-10-21 17:43:46 +02:00
Tobias Geerinckx-Rice
4b9a65bf6e
gnu: gnome-disk-utility: Update to 3.26.1. 
* gnu/packages/gnome.scm (gnome-disk-utility): Update to 3.26.1.
[build-system]: Use meson-build-system.
[native-inputs]: Add gtk+:bin.
 2017-10-21 17:43:46 +02:00
Tobias Geerinckx-Rice
b27991179e
gnu: perl-geo-ip: Update to 1.51. 
* gnu/packages/networking.scm (perl-geo-ip): Update to 1.51.
 2017-10-21 17:43:46 +02:00
Tobias Geerinckx-Rice
5713bbf157
Use HTTPS for bioconductor.org. 
* doc/guix.texi (Invoking guix import, Invoking guix refresh): Use HTTPS for
bioconductor.org URLs.
* gnu/packages/bioinformatics.scm (r-annotate, r-geneplotter, r-genefilter)
(r-deseq2, r-dexseq, r-annotationforge, r-rbgl, r-gseabase, r-category)
(r-gostats, r-shortread, r-biocgenerics, r-biocinstaller, r-biocviews)
(r-biocstyle, r-bioccheck, r-s4vectors, r-iranges, r-genomeinfodbdata)
(r-genomeinfodb, r-xvector, r-genomicranges, r-biobase, r-annotationdbi)
(r-biomart, r-biocparallel, r-biostrings, r-rsamtools, r-delayedarray)
(r-summarizedexperiment, r-genomicalignments, r-rtracklayer)
(r-genomicfeatures, r-graph, r-topgo, r-bsgenome, r-impute, r-seqpattern)
(r-seqlogo, r-motifrg, r-bamsignals, r-mutationalpatterns, r-tximport)
(r-rhdf5, r-chipseq, r-sva, r-affy, r-vsn, r-mzid, r-msnid)
(r-interactivedisplaybase, r-annotationhub)[home-page]: Likewise.
* gnu/packages/bioinformatics.scm (r-txdb-hsapiens-ucsc-hg19-knowngene)
(r-go-db, r-bsgenome-hsapiens-1000genomes-hs37d5, r-org-hs-eg-db)
(r-org-ce-eg-db, r-org-dm-eg-db, r-org-mm-eg-db)
(r-bsgenome-hsapiens-ucsc-hg19, r-bsgenome-mmusculus-ucsc-mm9)
(r-bsgenome-mmusculus-ucsc-mm10, r-txdb-mmusculus-ucsc-mm10-knowngene)
(r-bsgenome-celegans-ucsc-ce6, r-bsgenome-celegans-ucsc-ce10)
(r-bsgenome-dmelanogaster-ucsc-dm3, r-copyhelper)[source, home-page]:
Likewise.
* gnu/packages/statistics.scm (r-rcurl)[source]: Likewise.
* guix/build-system/r.scm (bioconductor-uri): Likewise.
* guix/import/cran.scm (%cran-url, bioconductor-package?)
(bioconductor-data-package?, bioconductor-experiment-package?): Likewise.
 2017-10-21 17:43:40 +02:00
Kei Kebreau
82bdcfe821
gnu: schismtracker: Update to 20170910. 
* gnu/packages/music.scm (schismtracker): Update to 20170910.
 2017-10-21 09:44:28 -04:00
Maxim Cournoyer
fd75eb6cd4
gnu: Fix the hashes of mutated GitHub archives. 
Fixes <https://bugs.gnu.org/28745>.

* gnu/packages/audio.scm (csound): Fix hash.
* gnu/packages/engineering.scm (fritzing): Likewise.
* gnu/packages/erlang.scm (erlang): Likewise.
* gnu/packages/fonts.scm (font-google-material-design-icons): Likewise.
* gnu/packages/graphics.scm (ogre): Likewise.
* gnu/packages/java.scm (java-plexus-interpolation, antlr3): Likewise.
* gnu/packages/serialization.scm (yaml-cpp): Likewise.
* gnu/packages/version-control.scm (libgit2): Likewise.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-10-20 22:55:51 +02:00
Leo Famulari
7827032a7c
gnu: libvirt: Fix CVE-2017-1000256. 
* gnu/packages/patches/libvirt-CVE-2017-1000256.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/virtualization.scm (libvirt)[source]: Use it.
 2017-10-20 15:36:43 -04:00
Leo Famulari
48f8b07082
gnu: mysql: Update to 5.7.20. 
* gnu/packages/databases.scm (mysql): Update to 5.7.20.
 2017-10-20 15:36:42 -04:00
Leo Famulari
3890df5800
gnu: webkitgtk: Update to 2.18.1. 
* gnu/packages/webkit.scm (webkitgtk): Update to 2.18.1.
 2017-10-20 15:36:39 -04:00
Tobias Geerinckx-Rice
a6e70e1169
gnu: youtube-dl: Update to 2017.10.20. 
* gnu/packages/video.scm (youtube-dl): Update to 2017.10.20.
 2017-10-20 19:48:34 +02:00
Tobias Geerinckx-Rice
5a740d06b6
gnu: dovecot: Update to 2.2.33.2. 
* gnu/packages/mail.scm (dovecot): Update to 2.2.33.2.
 2017-10-20 19:48:34 +02:00
Tobias Geerinckx-Rice
fa9ac83ec4
gnu: ola: Build with protobuf@2. 
This follows up commit dd12d4aad0.

* gnu/packages/protobuf.scm (protobuf-2): New variable.
* gnu/packages/lighting.scm (ola)[propagated-inputs]: Use it.
 2017-10-20 19:48:33 +02:00
Tobias Geerinckx-Rice
77aa706ab6
gnu: font-hack: Update to 3.000. 
* gnu/packages/fonts.scm (font-hack): Update to 3.000.
[source]: Download from new account.
[license]: Explicitly list all licences.
 2017-10-20 19:48:33 +02:00
Julien Lepiller
c812f46058
gnu: Add aegisub. 
* gnu/packages/video.scm (aegisub): New variable.
 2017-10-20 19:41:57 +02:00
Julien Lepiller
6779ae27e6
gnu: Add ffms2. 
* gnu/packages/video.scm (aegisub): New variable.
 2017-10-20 19:41:34 +02:00
Efraim Flashner
f71ce2824d
gnu: speexdsp: Fix building on aarch64-linux. 
* gnu/packages/xiph.scm (speexdsp)[arguments]: On aarch64-linux, disable
neon optimisations.
 2017-10-20 16:23:48 +03:00
Oleg Pykhalov
6df274073a
gnu: Add emacs-json-snatcher. 
* gnu/packages/emacs.scm (emacs-json-snatcher): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-10-20 14:41:41 +02:00
ng0
49d3d1d937
gnu: shellcheck: Update to 0.4.6. 
* gnu/packages/haskell.scm (shellcheck): Update to 0.4.6.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2017-10-20 14:41:41 +02:00
Tobias Geerinckx-Rice
3b2fa47879
gnu: dos2unix: Update to 7.4.0. 
* gnu/packages/textutils.scm (dos2unix): Update to 7.4.0.
 2017-10-20 02:16:56 +02:00
Tobias Geerinckx-Rice
6c0c175271
gnu: cowsay: Swap ‘build’ and ‘install’ phases. 
* gnu/packages/games.scm (cowsay)[arguments]: Invoke ‘install.sh’ during the
‘install’ phase.  Delete the ‘build’ phase, as there's nothing to be built.
 2017-10-20 02:16:55 +02:00
Tobias Geerinckx-Rice
46ba5337c0
gnu: cowsay: Update to 3.04. 
* gnu/packages/games.scm (cowsay): Update to 3.04.
[source]: Download from new location.
[home-page]: Point directly to the relevant page.
[description]: Correct mark-up and expand slightly.
 2017-10-20 02:16:54 +02:00
Tobias Geerinckx-Rice
8cccd09d3e
gnu: colordiff: Use HTTPS home page. 
* gnu/packages/patchutils.scm (colordiff)[home-page]: Use HTTPS.
 2017-10-20 02:16:54 +02:00
Tobias Geerinckx-Rice
fc622383a7
gnu: unbound: Update to 1.6.7. 
* gnu/packages/dns.scm (unbound): Update to 1.6.7.
 2017-10-20 02:16:53 +02:00
Tobias Geerinckx-Rice
378140e591
gnu: neofetch: Update to 3.3.0. 
* gnu/packages/admin.scm (neofetch): Update to 3.3.0.
[arguments]: Add ‘install’ phase replacement that manually invokes make.
 2017-10-20 02:16:52 +02:00
Tobias Geerinckx-Rice
1e9433cf4d
gnu: qtox: Update to 1.12.1. 
* gnu/packages/messaging.scm (qtox): Update to 1.12.1.
 2017-10-20 02:16:52 +02:00
Tobias Geerinckx-Rice
57473bfc51
gnu: speedtest-cli: Update to 1.0.7. 
* gnu/packages/networking.scm (speedtest-cli): Update to 1.0.7.
 2017-10-20 02:16:51 +02:00
Tobias Geerinckx-Rice
47b85a69c0
gnu: cppcheck: Update to 1.81. 
* gnu/packages/check.scm (cppcheck): Update to 1.81.
 2017-10-20 02:16:51 +02:00
Kei Kebreau
7f65202990
gnu: python-sge-pygame: Update source URL. 
* gnu/packages/game-development.scm (python-sge-pygame)[source]: Update URL.
 2017-10-19 18:01:37 -04:00
Leo Famulari
9ccce79910
gnu: musl: Update to 1.1.17. 
* gnu/packages/musl.scm (musl): Update to 1.1.17.
[source]: Remove patch.
* gnu/packages/patches/musl-CVE-2016-8859.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
 2017-10-19 17:37:25 -04:00
Ludovic Courtès
37ce440dcf
download: Download a nar when a VCS checkout fails. 
Fixes <https://bugs.gnu.org/28709>.

* guix/build/download-nar.scm: New file.
* Makefile.am (MODULES): Add it.
* guix/cvs-download.scm (cvs-fetch)[zlib, config.scm, modules]: New
variables.
[build]: Use MODULES.  Add call to 'download-nar'.
* guix/git-download.scm (git-fetch): Likewise.
* guix/hg-download.scm (hg-fetch): Likewise.
 2017-10-19 23:21:49 +02:00
Ludovic Courtès
8c3488259e
Add (guix progress). 
Among other things, this removes (guix utils), (guix ui), (guix config),
etc. from the closure of (guix build download), as was the case since
798648515b.

* guix/utils.scm (<progress-reporter>, call-with-progress-reporter):
Move to...
* guix/progress.scm: ... here.  New file.
* Makefile.am (MODULES): Add it.
* guix/build/download.scm (current-terminal-columns)
(nearest-exact-integer, duration->seconds, seconds->string)
(byte-count->string, progress-bar, string-pad-middle)
(rate-limited, progress-reporter/file, dump-port*)
(time-monotonic): Move to progress.scm.
* guix/scripts/download.scm: Adjust accordingly.
* guix/scripts/substitute.scm: Likewise.
 2017-10-19 23:21:49 +02:00
Ludovic Courtès
347fa4aebf
download: Make 'http-fetch' public. 
* guix/build/download.scm (http-fetch): Remove 'file' parameter.  Change
to return an input port and the content-length.  Make public.
(url-fetch): Adjust accordingly.
 2017-10-19 23:21:49 +02:00
Ludovic Courtès
b3ac341d4e
download: Remove old-Guile leftovers. 
This is a followup to 36626c556e.

* guix/build/download.scm (http-fetch): Rename 'port-or-bv' to 'port'.
Assume (port? port) is always true, and remove other branch.
 2017-10-19 23:21:49 +02:00
Ludovic Courtès
9b396c0cab
vm: Always use GRUB/i386. 
Fixes <https://bugs.gnu.org/28768>.
Reported by Oleg Pykhalov <go.wigust@gmail.com>.

* gnu/system/vm.scm (virtualized-operating-system): Override the
'bootloader' field.
 2017-10-19 23:21:49 +02:00
Mark H Weaver
b11962067b
gnu: linux-libre: Update to 4.13.8. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.13.8.
(%linux-libre-hash): Update hash.
 2017-10-19 15:31:47 -04:00
Mark H Weaver
7a402621ec
gnu: linux-libre@4.9: Update to 4.9.57. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.57.
 2017-10-19 15:31:02 -04:00
Mark H Weaver
a7c3dfeb6c
gnu: linux-libre@4.4: Update to 4.4.93. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.93.
 2017-10-19 15:30:30 -04:00
Mark H Weaver
a8401c4ef1
gnu: linux-libre@4.1: Update to 4.1.45. 
* gnu/packages/linux.scm (linux-libre-4.1): Update to 4.1.45.
Remove patch that is now included upstream.
 2017-10-19 15:29:09 -04:00