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30695 Commits

Author SHA1 Message Date
Ricardo Wurmus 53cc59a1d8
gnu: r-ape: Move to (gnu packages cran). 
* gnu/packages/bioinformatics.scm (r-ape): Move from here...
* gnu/packages/cran.scm (r-ape): ...to here.
 2018-03-08 23:31:55 +01:00
Ricardo Wurmus b7ce825c85
gnu: r-sfsmisc: Update to 1.1-2. 
* gnu/packages/statistics.scm (r-sfsmisc): Update to 1.1-2.
 2018-03-08 23:31:55 +01:00
Ricardo Wurmus 69c38faa91
gnu: r-nmf: Update to 0.21.0. 
* gnu/packages/statistics.scm (r-nmf): Update to 0.21.0.
 2018-03-08 23:31:55 +01:00
Ricardo Wurmus 1b17fdbe41
gnu: r-openssl: Update to 1.0.1. 
* gnu/packages/statistics.scm (r-openssl): Update to 1.0.1.
 2018-03-08 23:31:55 +01:00
Ricardo Wurmus bbf8540d43
gnu: python-sympy, python2-sympy: Only run core tests. 
* gnu/packages/python.scm (python-sympy, python2-sympy)[arguments]: Move tests
after installation; run only core tests.
 2018-03-08 23:14:10 +01:00
Julien Lepiller 1f3921e143
doc: Explain what we mean by root in binary installation. 
* doc/guix.texi (Binary Installation): Add explicit instructions to become root.
 2018-03-08 22:03:19 +01:00
Marius Bakke d8fa1890c7
Merge branch 'master' into staging 2018-03-08 21:21:05 +01:00
Marius Bakke 5e268faf85
gnu: Remove gcc-for-libstdc++. 
* gnu/packages/commencement.scm (libstdc++-boot0): Remove variable.
(libstdc++-boot0): Use GCC-4.9 instead.
 2018-03-08 20:22:42 +01:00
Efraim Flashner fee7f8a94e
gnu: nano: Update to 2.9.4. 
* gnu/packages/nano.scm (nano): Update to 2.9.4.
 2018-03-08 20:29:20 +02:00
Ricardo Wurmus 84c195e505
gnu: r-dropbead: Update to 0-2.d746c6f. 
* gnu/packages/bioinformatics.scm (r-dropbead): Update to 0-2.d746c6f.
 2018-03-08 18:53:49 +01:00
Marius Bakke 236b7aed82
gnu: libxcb: Update to 1.13. 
* gnu/packages/xorg.scm (libxcb): Update to 1.13.
[source](patches): Remove.
* gnu/packages/patches/libxcb-python-3.5-compat.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
 2018-03-08 18:30:41 +01:00
Marius Bakke 460d07b463
gnu: xcb-proto: Update to 1.13. 
* gnu/packages/xorg.scm (xcb-proto): Update to 1.13.
[source](patches): Remove.
* gnu/packages/patches/xcb-proto-python3-print.patch,
gnu/packages/patches/xcb-proto-python3-whitespace.patch: Delete files.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
 2018-03-08 18:30:41 +01:00
Marius Bakke 9cc46c573e
gnu: util-macros: Update to 1.19.2. 
* gnu/packages/xorg.scm (util-macros): Update to 1.19.2.
 2018-03-08 18:30:41 +01:00
Marius Bakke 762e53c320
gnu: dbus: Update to 1.12.6. 
* gnu/packages/glib.scm (dbus): Update to 1.12.6.
 2018-03-08 18:30:41 +01:00
Kei Kebreau 7f2f834550
gnu: milkytracker: Actually link with the JACK library. 
* gnu/packages/music.scm (milkytracker)[arguments]: Add appropriate configure
flag.
 2018-03-08 10:09:29 -05:00
Marius Bakke 7005f8cb58
gnu: harfbuzz: Update to 1.7.6. 
* gnu/packages/gtk.scm (harfbuzz): Update to 1.7.6.
[native-inputs]: Add WHICH.  Replace PYTHON-2 with PYTHON-WRAPPER.
 2018-03-08 14:17:57 +01:00
Marius Bakke 5e98d4dcce
gnu: libuv: Update to 1.19.2. 
* gnu/packages/libevent.scm (libuv): Update to 1.19.2.
 2018-03-08 14:01:30 +01:00
Marius Bakke 6eb45016d6
gnu: graphite2: Update to 1.3.11. 
* gnu/packages/patches/graphite2-ffloat-store.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
* gnu/packages/fontutils.scm (graphite2): Update to 1.3.11.
[source](patches): Remove.
 2018-03-08 14:01:29 +01:00
Marius Bakke 1b5292ca54
gnu: libxml2: Update to 2.9.8. 
* gnu/packages/xml.scm (libxml2): Update to 2.9.8.
 2018-03-08 14:01:29 +01:00
Marius Bakke 3e25d2b22e
gnu: python-msgpack-transitional: Use a distinct name. 
* gnu/packages/python.scm (python-msgpack-transitional)[name]: New field.
 2018-03-08 13:23:22 +01:00
Marius Bakke 875fe4b6b6
gnu: nghttp2: Use a fixed variant of tzdata for tests. 
* gnu/packages/web.scm (nghttp2)[native-inputs]: Replace TZDATA with TZDATA-FOR-TESTS.
 2018-03-08 13:23:22 +01:00
Danny Milosavljevic c32e3ddedd
services: agetty: Call default-serial-port only when starting. 
* gnu/services/base.scm (agetty-shepherd-service): Call default-serial-port
only when starting.
 2018-03-08 13:16:30 +01:00
Marius Bakke 770986d541
gnu: feh: Update to 2.25.1. 
* gnu/packages/image-viewers.scm (feh): Update to 2.25.1.
 2018-03-08 12:25:05 +01:00
Ludovic Courtès dffc5ab5e4
vm: Use 9p mount tags below 32 chars. 
Fixes <https://bugs.gnu.org/30667>.
Reported by Björn Höfling <bjoern.hoefling@bjoernhoefling.de>.

* gnu/system/vm.scm (file-system->mount-tag): Use 'sha1' to compute the
tag.
 2018-03-08 11:56:20 +01:00
Ludovic Courtès 33286075b9
hash: Add 'sha1'. 
* guix/hash.scm (GCRY_MD_SHA1): New macro.
(bytevector-hash): New procedure.
(sha256): Express in terms of 'bytevector-hash'.
(sha1): New procedure.
* tests/hash.scm ("sha1, empty", "sha1, hello"): New tests.
 2018-03-08 11:56:20 +01:00
Ludovic Courtès 3aab885144
gnu: guile: Add 2.2.2. 
* gnu/packages/guile.scm (guile-2.2.2): New variable.
 2018-03-08 11:56:20 +01:00
Ludovic Courtès ca1499ce20
gnu: intelmetool, me-cleaner: Restrict to Intel platforms. 
* gnu/packages/flashing-tools.scm (intelmetool)[supported-systems]: New
field.
(me-cleaner)[supported-systems]: New field.
 2018-03-08 11:56:20 +01:00
Tobias Geerinckx-Rice 338e2852b5
gnu: python-ddt: Update to 1.1.2. 
* gnu/packages/python.scm (python-ddt): Update to 1.1.2.
 2018-03-08 09:07:30 +01:00
Tobias Geerinckx-Rice ef20a6f0b4
gnu: python-ddt: Mark up description. 
* gnu/packages/python.scm (python-ddt)[description]: Use @dfn.
 2018-03-08 09:07:30 +01:00
Tobias Geerinckx-Rice 3d63422c92
gnu: yapet: Update to 1.1. 
* gnu/packages/password-utils.scm (yapet): Update to 1.1.
 2018-03-08 09:07:29 +01:00
Tobias Geerinckx-Rice f95e9a6bca
gnu: keepassxc: Update to 2.3.1. 
* gnu/packages/password-utils.scm (keepassxc): Update to 2.3.1.
 2018-03-08 09:07:29 +01:00
Tobias Geerinckx-Rice 6e076b3d50
gnu: slurm: Update to 17.11.3. 
* gnu/packages/parallel.scm (slurm): Update to 17.11.3.
 2018-03-08 09:07:28 +01:00
Hartmut Goebel 7ac43c44e8
gnu: giflib: Make "reallocarray" private, solve glibc@2.26 conflict. 
Rename the function and move the declaration from gif_lib.h to
gif_lib_private.h to solve conflicts when some .c-file #includes
both stdlib.h and gif_lib.h.
See also https://sourceforge.net/p/giflib/bugs/110/

* gnu/packages/patches/giflib-make-reallocarray-private.patch: New
  file
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/image.scm(giflib)[source](patches): New field.
 2018-03-08 09:05:52 +01:00
Clément Lassieur 254a88199f
gnu: global: Replace GLOBAL with GNU GLOBAL in description. 
* gnu/packages/code.scm (global)[description]: Replace GLOBAL with GNU GLOBAL.
 2018-03-08 09:01:12 +01:00
Rutger Helling a89bf3318f
gnu: vulkan-icd-loader: Update to 1.1.70.0. 
* gnu/packages/vulkan.scm (vulkan-icd-loader): Update to 1.1.70.0.
 2018-03-08 08:53:19 +01:00
Danny Milosavljevic e2d0cf033e
gnu: sunxi-tools: Add cross-libc's "static" output. 
* gnu/packages/admin.scm (sunxi-tools)[native-inputs]: Add cross-libc's
"static" output.
 2018-03-08 01:41:22 +01:00
Danny Milosavljevic e7988175d9
gnu: sunxi-tools: Improve build error reporting. 
* gnu/packages/admin.scm (sunxi-tools)[arguments]<#:phases>[set-environment-up]:
Improve build error reporting.
 2018-03-08 01:41:20 +01:00
Ricardo Wurmus f43857d65d
gnu: emacs-slack: Update to 0-3.9272460. 
* gnu/packages/emacs.scm (emacs-slack): Update to 0-3.9272460.
 2018-03-08 01:24:02 +01:00
Ricardo Wurmus 0bdd5b8ab7
gnu: Add pigx-rnaseq. 
* gnu/packages/bioinformatics.scm (pigx-rnaseq): New variable.
 2018-03-07 23:25:36 +01:00
Ricardo Wurmus e2cafc2449
gnu: Add r-algdesign. 
* gnu/packages/cran.scm (r-algdesign): New variable.
 2018-03-07 22:43:38 +01:00
Ricardo Wurmus f64fea1d2c
gnu: Add r-radiant-data. 
* gnu/packages/cran.scm (r-radiant-data): New variable.
 2018-03-07 22:18:38 +01:00
Ricardo Wurmus 5d9b82acfc
gnu: Add r-shinyace. 
* gnu/packages/cran.scm (r-shinyace): New variable.
 2018-03-07 22:18:38 +01:00
Ricardo Wurmus a00968b7a8
gnu: Add r-import. 
* gnu/packages/cran.scm (r-import): New variable.
 2018-03-07 22:18:38 +01:00
Ricardo Wurmus b2dc4cb41c
gnu: Add r-cgdsr. 
* gnu/packages/cran.scm (r-cgdsr): New variable.
 2018-03-07 22:18:38 +01:00
Ludovic Courtès 12ff7f3fc7
gnu: glibc: Add a comment in the patch. 
* gnu/packages/patches/glibc-allow-kernel-2.6.32.patch: Add a comment.
 2018-03-07 21:39:32 +01:00
Ludovic Courtès 036ed3a830
gnu: glibc-2.26-patch: Remove unneeded 'replacement' field. 
* gnu/packages/base.scm (glibc-2.26-patched): Remove unneeded
'replacement' field.
 2018-03-07 21:39:32 +01:00
Ludovic Courtès 7c788ed227
gnu: commencement: 'glibc-final' inherits the replacement of 'glibc'. 
That was the intent of commit b672a81607,
but that commit left 'glibc-final' ungrafted.

Reported by Ricardo Wurmus at
<https://lists.gnu.org/archive/html/guix-devel/2018-02/msg00435.html>.

* gnu/packages/commencement.scm (glibc-final): Use 'package/inherit' so
that we inherit the 'replacement' of GLIBC.
 2018-03-07 21:39:32 +01:00
Ludovic Courtès 0fccb24765
gnu: commencement: 'glibc-final' now inherits from 'glibc'. 
* gnu/packages/commencement.scm (glibc-final): Inherit from GLIBC
instead of GLIBC-FINAL-WITH-BOOTSTRAP-BASH.
[propagated-inputs]: New fields.
 2018-03-07 21:39:32 +01:00
Ricardo Wurmus 021caafa2c
gnu: Add r-heatmaply. 
* gnu/packages/cran.scm (r-heatmaply): New variable.
 2018-03-07 18:12:42 +01:00
Tobias Geerinckx-Rice f35843674e
gnu: znc: Update to 1.6.6. 
* gnu/packages/messaging.scm (znc): Update to 1.6.6.
 2018-03-07 15:37:14 +01:00