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Author SHA1 Message Date
Ricardo Wurmus
42c3e00c20
gnu: pigx-rnaseq: Update to 0.0.5. 
* gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.0.5.
[inputs]: Replace snakemake-4 with snakemake.
 2018-12-04 16:21:50 +01:00
Andreas Enge
4ebfe99a3f
gnu: pari-gp: Update to 2.11.1. 
* gnu/packages/algebra.scm (pari-gp): Update to 2.11.1.
 2018-12-04 13:38:16 +01:00
Tim Gesthuizen
f5a15a86b0
gnu: emacs-irony-mode: Fetch source using git. 
* gnu/packages/emacs.scm (emacs-irony-mode)[source]: Rewrite in terms of GIT-FETCH.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-12-04 11:14:21 +01:00
Timo Eisenmann
3a1835128d
gnu: enlightenment: Use absolute path to 'edje_cc'. 
* gnu/packages/enlightenment.scm (enlightenment)[arguments]: In
'set-system-actions', set absolute file name to 'edje_cc'.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-12-04 11:06:00 +01:00
Paul Garlick
dd6cb4a0af
gnu: fenics: Skip extra demo in 'check' phase. 
* gnu/packages/simulation.scm (fenics)[arguments]: Add 'curl-curl'
demo to list of demos that require meshes supplied by git-lfs.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-12-04 10:58:56 +01:00
Paul Garlick
af5236739e
gnu: petsc-openmpi: Configure with support for HYPRE preconditioner. 
* gnu/packages/maths.scm (petsc-openmpi)[inputs]: Add hypre-openmpi.
[arguments]: Add 'with-hypre=1' flag.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-12-04 10:58:50 +01:00
Ludovic Courtès
7bc5657f84
grafts: Mark as non substitutable. 
* guix/grafts.scm (graft-derivation/shallow): Pass #:substitutable? to
'build-expression->derivation'.
 2018-12-04 10:57:56 +01:00
Ludovic Courtès
9300e2e893
refresh: '--list-dependents' ignores deprecated packages. 
* guix/scripts/refresh.scm (all-packages): Filter out deprecated packages.
 2018-12-04 10:57:56 +01:00
Ludovic Courtès
0a5fa004f7
build: Default to https://ci.guix.info for substitutes. 
* config-daemon.ac (guix_substitute_urls): Always default to
"https://ci.guix.info".
* doc/guix.texi (SUBSTITUTE-SERVER): Switch to ci.guix.info.
* guix/scripts/build.scm (%default-log-urls): Likewise.
* guix/scripts/substitute.scm (%default-substitute-urls): Likewise.
* guix/store.scm (%default-substitute-urls): Likewise.
 2018-12-04 10:57:56 +01:00
Ludovic Courtès
0bc02becca
Remove most references to hydra.gnu.org. 
* Makefile.am (assert-binaries-available): Don't mention hydra.gnu.org
in comment.
* build-aux/check-available-binaries.scm: Likewise.
* build-aux/check-final-inputs-self-contained.scm: Likewise.
* doc/guix.texi (SUBSTITUTE-SERVER): New variable.
Use it throughout instead of "mirror.hydra.gnu.org".
* doc/contributing.texi (Submitting Patches): Likewise.
* gnu/services/base.scm (hydra-key-authorization)
(guix-activation): Remove mentions of "hydra.gnu.org" in comments and
messages.
* gnu/system/install.scm (%installation-services): Likewise.
* guix/scripts/size.scm (guix-size): Likewise.
 2018-12-04 10:57:56 +01:00
Ludovic Courtès
6a837b6062
etc: Add "ci.guix.info.pub" public key file. 
* etc/substitutes/ci.guix.info.pub: New file.
* Makefile.am (dist_pkgdata_DATA): Add it.
* guix/self.scm (miscellaneous-files): Add
"share/guix/ci.guix.info.pub".
 2018-12-04 10:57:56 +01:00
Rutger Helling
1f51f0d975
gnu: dolphin-emu: Update to commit 2c57e70. 
* gnu/packages/emulators.scm (dolphin-emu): Update to commit 2c57e70.
 2018-12-04 10:03:55 +01:00
Oleg Pykhalov
9325533bd0
services: ddclient: Fix unrecognized keywords. 
This patch fixes warnings about unrecognized keywords in logs.

* gnu/services/dns.scm (serialize-field): Skip some field names.
 2018-12-04 07:16:00 +03:00
Leo Famulari
191c439e79
gnu: Beets: Update to 1.4.7. 
* gnu/packages/music.scm (beets): Update to 1.4.7.
 2018-12-03 18:54:53 -05:00
Leo Famulari
ca45e49404
gnu: python-unidecode: Update to 1.0.23. 
* gnu/packages/python.scm (python-unidecode, python2-unidecode): Update to
1.0.23.
 2018-12-03 18:54:50 -05:00
Leo Famulari
c05c1910db
gnu: Beets: Fix compatibility with Python 3.7. 
* gnu/packages/patches/beets-python-3.7-fix.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
*  gnu/packages/music.scm (beets)[source]: Use it.
 2018-12-03 17:30:30 -05:00
Ludovic Courtès
91a4863d9d
gnu: Add hnsd. 
Thank you, Handshake!

* gnu/packages/dns.scm (hnsd): New variable.
 2018-12-03 21:57:49 +01:00
Julien Lepiller
e08da7e231
nls: Update 'fr' translation. 2018-12-03 21:02:11 +01:00
Marius Bakke
4f03aa23e8
gnu: python-cryptography: Update to 2.4.2. 
* gnu/packages/python-crypto.scm (python-cryptography-vectors,
python-cryptography): Update to 2.4.2.
 2018-12-03 17:44:14 +01:00
Marius Bakke
cee3d7136b
gnu: python-statsmodels: Update to 0.9.0. 
* gnu/packages/statistics.scm (python-statsmodels): Update to 0.9.0.
[arguments]: Remove obsolete workaround.
 2018-12-03 17:44:14 +01:00
Marius Bakke
650bc94216
gnu: python-scikit-learn: Update source hash. 
The upstream git tag moved from 6ccb5e44b188059e9b7459ac02ec97e32a9ab7ba to
55bf5d93e5674f13a1134d93a11fd0cd11aabcd1 two days later...

* gnu/packages/machine-learning.scm (python-scikit-learn)[source](sha256):
Update for upstream tag change.
 2018-12-03 17:44:14 +01:00
Marius Bakke
635d29c244
gnu: python-scikit-image: Propagate six and numpy. 
* gnu/packages/python.scm (python-scikit-image)[native-inputs]: Move
PYTHON-NUMPY and PYTHON-SIX ...
[propagated-inputs]: ... here.
 2018-12-03 17:44:14 +01:00
Marius Bakke
fcb5409438
gnu: python-scikit-image: Update to 0.14.1. 
Also add explicit Python2 variants for its dependency closure.

* gnu/packages/python.scm (python-scikit-image): Update to 0.14.1.
[source](uri): Use PYPI-URI.
[propagated-inputs]: Add PYTHON-CLOUDPICKLE, PYTHON-DASK, PYTHON-MATPLOTLIB
and PYTHON-PYWAVELETS.
(python2-toolz, python2-cloudpickle, python2-locket, python2-blosc,
python2-partd, python2-dask): New public variables.
 2018-12-03 17:44:14 +01:00
Marius Bakke
947ee67d4b
gnu: python-dask: Update to 1.0.0. 
* gnu/packages/python.scm (python-dask): Update to 1.0.0.
[arguments]: Disable one test for Python2, and override 'check' phase.
 2018-12-03 17:44:14 +01:00
Marius Bakke
03bfbe2f10
gnu: python-cloudpickle: Update to 0.6.1. 
* gnu/packages/python.scm (python-cloudpickle): Update to 0.6.1.
 2018-12-03 17:44:14 +01:00
Marius Bakke
36c90dda38
gnu: Add python-pywavelets. 
* gnu/packages/python.scm (python-pywavelets, python2-pywavelets): New public
variables.
 2018-12-03 17:44:14 +01:00
Marius Bakke
8aaec042d4
gnu: kicad: Fix build with Boost >= 1.68. 
* gnu/packages/engineering.scm (kicad)[arguments]: Add phase 'adjust-boost-include'.
 2018-12-03 17:44:13 +01:00
Marius Bakke
aefcdea199
gnu: python-greenlet: Update to 0.4.15. 
* gnu/packages/python.scm (python-greenlet): Update to 0.4.15.
 2018-12-03 17:44:13 +01:00
Marius Bakke
0e02e81936
gnu: python-geventhttpclient: Fix test failure. 
* gnu/packages/python-web.scm (python-geventhttpclient)[arguments]: Add
"--import-mode=append" to pytest invokation.
 2018-12-03 17:44:13 +01:00
Eric Bavier
a8fdca11d8
doc: Remove footnotes about guile-json requirements. 
Follow-up to 6efccabe4e.

* doc/guix.texi (Invoking guix import)[pypi, gem, cpan, json]: Remove
footnotes mentioning requirement for Guile-JSON.
 2018-12-03 08:56:06 -06:00
Laura Lazzati
b9914c4794
doc: Fix "desktop" OS config example. 
* gnu/system/examples/desktop.tmpl (file-systems): Add
'file-system-label' call in 'device' field.

Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
 2018-12-03 14:27:24 +01:00
Björn Höfling
b8ca5b3146
hg-fetch: Remove .hg directories of sub-repositories. 
* guix/build/hg.scm (hg-fetch): Remove all .hg directories recursively.
 2018-12-03 12:29:08 +01:00
Pierre Neidhardt
a03894416e
gnu: emacs-helm-company: Update to 0.2.3. 
* gnu/packages/emacs.scm (emacs-helm-company): Update to 0.2.3.
 2018-12-03 11:21:06 +01:00
Ludovic Courtès
194451347d
Merge branch 'core-updates' 2018-12-03 08:52:17 +01:00
Oleg Pykhalov
37c6f11f8d
repl: Load user's initialization file. 
* guix/scripts/repl.scm (guix-repl): Load user's initialization file.
 2018-12-03 08:04:51 +03:00
Eric Bavier
6efccabe4e
guile-json: Download source from savannah. 
* gnu/packages/guile.scm (guile-json)[source]: Download tarball from
savannah.  Remove 'file-name' field.
[native-inputs]: Remove autoconf and automake; tarball is bootstrapped.
 2018-12-02 17:56:05 -06:00
Eric Bavier
6776af04d4
Make Guile-JSON a required dependency. 
* README (Requirements): Remove "optional" verbiage.
* doc/guix.texi (Requirements): Move Guile-JSON from optional to required.
* configure.ac (HAVE_GUILE_JSON): Remove Automake conditional.
(have_guile_json): Error if not "yes".
* Makefile.am (MODULE, SCM_TESTS)[HAVE_GUILE_JSON]: Add modules and tests
unconditionally.
* gnu/packages/package-mangement.scm (guix-minimal)[propagated-inputs]: Leave
guile-json input.
 2018-12-02 17:56:05 -06:00
Mathieu Lirzin
a7bed894d2
gnu: emacs-js2-mode: Update to 20180301. 
* gnu/packages/emacs.scm (emacs-js2-mode): Update to 20180301.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-12-02 23:35:27 +01:00
Mathieu Lirzin
6837deb749
gnu: emacs-google-translate: Update to 0.11.16. 
* gnu/packages/emacs.scm (emacs-google-translate): Update to 0.11.16.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-12-02 23:34:36 +01:00
Kyle Meyer
3855506f84
gnu: Add git-imerge. 
* gnu/packages/version-control.scm (git-imerge): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-12-02 23:30:51 +01:00
Miguel Ángel Arruga Vivas
f31e586b58
doc: Typos in guix.texi manual. 
* doc/guix.texi (USB Stick and DVD Installation): use @var{system}
consistently.
(Proceeding with the Installation): use @email markup instead of @file.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-12-02 23:28:49 +01:00
Ludovic Courtès
793dcd8c67
nls: Update 'de' translation of the manual. 2018-12-02 23:08:47 +01:00
Ludovic Courtès
2d33776050
self: Provide UTF-8 locales when building the manual. 
Fixes <https://bugs.gnu.org/33580>.
Reported by <znavko@tutanota.com>.

* guix/self.scm (info-manual)[glibc-utf8-locales]: New variable.
[build]: Add call to 'setenv' for "GUIX_LOCPATH".
 2018-12-02 22:53:22 +01:00
Pierre Neidhardt
8757209ec5
gnu: emacs-mu4e-conversation: Update to 20181126. 
* gnu/packages/emacs.scm (emacs-mu4e-conversation): Update to 20181126.
 2018-12-02 20:53:05 +01:00
Julien Lepiller
adfb167f12
nls: Update 'fr' translation. 2018-12-02 14:31:20 +01:00
Danny Milosavljevic
8cddb0d636
gnu: rust: Remove flaky test. 
* gnu/packages/rust.scm (rust-1.22)[arguments]<#:phases>[remove-flaky-test]:
New phase.
 2018-12-02 14:16:43 +01:00
Pierre Neidhardt
acad932e63
gnu: Add sbcl-next. 
* gnu/packages/web-browsers.scm (sbcl-next): New variable.
 2018-12-02 13:21:51 +01:00
Pierre Neidhardt
18974c1eaa
gnu: Add next-gtk-webkit. 
* gnu/packages/web-browsers.scm (next-gtk-webkit): New variable.
 2018-12-02 13:21:51 +01:00
Efraim Flashner
c661f25a94
gnu: ocaml@4.01: Enable building on aarch64-linux. 
This reverts 454e7132d6.

* gnu/packages/ocaml.scm (ocaml@4.01)[supported-systems]: Remove field.
[arguments]: When building on aarch64-linux, replace the custom
'configure script.
 2018-12-02 13:05:42 +02:00
Arun Isaac
f764868d37
gnu: ansible: Update to 2.7.4. 
* gnu/packages/admin.scm (ansible): Update to 2.7.4.
 2018-12-02 16:20:37 +05:30