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10992 Commits

Author SHA1 Message Date
Ben Woodcroft fe91666b79 gnu: ncbi-vdb: Update to 2.5.7. 
gnu/packages/bioinformatics.scm (ncbi-vdb): Update to 2.5.7.
 2016-01-26 10:59:13 +10:00
Ben Woodcroft d3b39bc231 gnu: ngs-sdk: Update to 1.2.3. 
gnu/packages/bioinformatics.scm (ngs-sdk): Update to 1.2.3.
 2016-01-26 10:59:13 +10:00
Andreas Enge 46854e99ca gnu: webkitgtk-2.4, webkitgtk/gtk+-2, qt: Disable parallel builds. 
* gnu/packages/webkit.scm (webkitgtk-2.4, webkitgtk/gtk+-2):
  Disable parallel builds as suggested in
  https://lists.gnu.org/archive/html/guix-devel/2016-01/msg00837.html .
* gnu/packages/qt.scm (qt): Likewise.
 2016-01-25 23:33:54 +01:00
Alex Kost 0833d0c025 gnu: aspell-dict-en: Update to 2016.01.19-0. 
* gnu/packages/aspell.scm (aspell-dict-en): Update to 2016.01.19-0.
 2016-01-25 22:11:47 +03:00
Alex Kost 687c9bc023 emacs: Add interface for licenses. 
* emacs/guix-main.scm (%license-param-alist): New variable.
  (license->sexp, find-licenses, license-entries): New procedures.
* emacs/guix-license.el (guix-license-get-entries)
  (guix-license-get-display, guix-license-insert-packages-button)
  (guix-license-insert-comment, guix-license-list-describe)
  (guix-license-list-show-packages): New procedures.
  (guix-licenses): New command.
* doc/emacs.texi (Emacs Licenses): New node.
  (Emacs Interface): Add it.
* doc/guix.texi (Top): Add it.
* NEWS: Mention new interface.
 2016-01-25 22:11:47 +03:00
Alex Kost 6dd460c856 emacs: list: Support displaying URL links. 
* emacs/guix-list.el (guix-list-url): New face.
  (guix-list-get-url): New procedure.
 2016-01-25 22:11:47 +03:00
Alex Kost 83aab70b2d emacs: Add 'guix-packages-by-license' command. 
* emacs/guix-main.scm (packages-by-license): New procedure.
(%patterns-makers): Add 'license' search type.
* emacs/guix-messages.el (guix-message-packages-by-license): New procedure.
(guix-messages): Use it.
* emacs/guix-ui-package.el (guix-packages-by-license): New command.
* doc/emacs.texi (Emacs Commands): Document it.
 2016-01-25 22:11:47 +03:00
Alex Kost cefb7aea9d emacs: Buttonize licenses in "Package Info". 
* emacs/guix-ui-package.el (guix-package-license): New button type.
  (guix-package-info-format, guix-output-info-format): Use it.
* doc/emacs.texi (Emacs Info buffer): Mention it.
 2016-01-25 22:11:47 +03:00
Alex Kost 71310ccc56 emacs: Add 'guix-browse-license-url' command. 
* emacs/guix-main.scm (%licenses): New variable.
(licenses, license-names, lookup-license, lookup-license-uri): New
procedures.
* emacs/guix-read.el (guix-license-names, guix-read-license-name): New
procedures.
* emacs/guix-license.el: New file.
(guix-lookup-license-url): New procedure.
(guix-browse-license-url): New command.
* emacs.am (ELFILES): Add new file.
 2016-01-25 22:11:47 +03:00
Alex Kost 0a2a2b3387 emacs: Rename 'file-path' to 'file-name'. 
* emacs/guix-info.el (guix-info-file-path): Rename to...
  (guix-info-file-name): ... this.
* emacs/guix-list.el (guix-list-file-path): Rename to...
  (guix-list-file-name): ... this.
  (guix-list-get-file-path): Rename to...
  (guix-list-get-file-name): ... this.
* emacs/guix-ui-generation.el (guix-generation-list-format): Adjust
  accordingly.
* emacs/guix-ui-system-generation.el (guix-system-generation-list-format):
  Likewise.
* NEWS: Mention faces renaming.
 2016-01-25 22:11:47 +03:00
Efraim Flashner 8581f4c195 gnu: Add python-efl. 
* gnu/packages/enlightenment.scm (python-efl, python2-efl): New variables.
 2016-01-25 11:41:23 +02:00
Efraim Flashner 2259442b15 gnu: cmocka: New variable. 
* gnu/packages/check.scm (cmocka): New variable.
 2016-01-25 11:39:42 +02:00
Ben Woodcroft 23f3cbb8de gnu: Add pixz. 
* gnu/packages/compression.scm (pixz): New variable.
 2016-01-25 18:45:33 +10:00
Mark H Weaver 412bee5e29 Merge branch 'master' into core-updates 2016-01-24 21:04:54 -05:00
Ludovic Courtès 880d647d0f doc: Add policy about version numbers for VCS snapshots. 
* doc/guix.texi (Version Numbers): Add paragraphs about VCS snapshot
version numbers.
 2016-01-25 00:11:22 +01:00
Ludovic Courtès 24a8ef3ba1 doc: Remove unneeded backslashes. 
* doc/guix.texi (Networking Services): Remove unneeded backslashes.
 2016-01-25 00:11:22 +01:00
Ludovic Courtès f6afc48008 gnu: grue-hunter: Use 'https' URL. 
* gnu/packages/grue-hunter.scm (grue-hunter): Use 'https' URL.
 2016-01-25 00:11:22 +01:00
Ludovic Courtès 9059b97dc3 doc: 'base-initrd' has #:virtio? default to #t. 
This is a followup to e26d507.

* doc/guix.texi (Initial RAM Disk): #:virtio? defaults to #t.
 2016-01-25 00:11:22 +01:00
Ben Woodcroft bcadaf0050 gnu: Add sortmerna. 
* gnu/packages/bioinformatics.scm (sortmerna): New variable.
 2016-01-25 08:35:11 +10:00
Andreas Enge 74273b6f2d doc: Fix typo in section on offloading. 
* doc/guix.texi (Daemon Offload Setup): Fix quoting typo in command.
 2016-01-24 23:25:38 +01:00
Andreas Enge 447f3ae7c1 gnu: calibre: Update to 2.49.0. 
* gnu/packages/ebook.scm (calibre): Update to 2.49.0.
 2016-01-24 20:12:05 +01:00
Ricardo Wurmus 541ed7b030 gnu: cross-gcc-arguments: Enable C++, disable building of libstdc++-v3. 
* gnu/packages/cross-base.scm (cross-gcc-arguments)[arguments]: Disable
  building libstdc++-v3 and enable building C++ compiler.
 2016-01-24 14:25:20 +01:00
Ricardo Wurmus a763ce7da9 gnu: Add Qtractor. 
* gnu/packages/music.scm (qtractor): New variable.
 2016-01-24 14:20:52 +01:00
Ricardo Wurmus 8ddc5d5723 gnu: yoshimi: Update to 1.3.8.2. 
* gnu/packages/music.scm (yoshimi): Update to 1.3.8.2.
 2016-01-24 14:19:29 +01:00
Efraim Flashner 6b6a62dd05 gnu: privoxy: Update to 3.0.24. 
* gnu/packages/tor.scm (privoxy): Update to 3.0.24.
 2016-01-24 09:20:55 +02:00
Efraim Flashner be866fb13e gnu: tor: Update to 0.2.7.6. 
* gnu/packages/tor.scm (tor): Update to 0.2.7.6.
 2016-01-24 07:21:33 +02:00
Efraim Flashner 17206f72ed gnu: myrepos: Update to 1.20160123. 
* gnu/packages/version-control.scm (myrepos): Update to 1.20160123.
 2016-01-24 07:04:05 +02:00
Efraim Flashner 4c73302739 gnu: nano: Update to 2.5.1. 
* gnu/packages/nano.scm (nano): Update to 2.5.1.
 2016-01-24 06:46:01 +02:00
Mark H Weaver c5184468f5 build: container: Make 'unprivileged-user-namespace-supported?' more robust. 
* gnu/build/linux-container.scm (unprivileged-user-namespace-supported?): Only
  read and check the first character, to cope with a possible newline in the
  (pseudo-)file.
 2016-01-23 18:44:03 -05:00
Leo Famulari fe17fb4a2c gnu: letsencrypt and acme: Update to 0.2.0. 
These packages should be updated together.

* gnu/packages/tls.scm (letsencrypt): Update to 0.2.0.
(acme): Update to 0.2.0.
 2016-01-23 17:39:08 -05:00
Efraim Flashner 21565719e5 gnu: claws-mail: Update to 3.13.2. 
* gnu/packages/mail.scm (claws-mail): Update to 3.13.2.
 2016-01-23 20:13:31 +02:00
Ricardo Wurmus 3a40a92c73 gnu: Add cufflinks. 
* gnu/packages/bioinformatics.scm (cufflinks): New variable.
 2016-01-23 09:15:11 +01:00
Ricardo Wurmus 94ce537eac gnu: Add TopHat. 
* gnu/packages/bioinformatics.scm (tophat): New variable.
* gnu/packages/patches/tophat-build-with-later-seqan.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
 2016-01-23 08:53:10 +01:00
Ricardo Wurmus 3062d750b4 gnu: star: Update to 2.5.1b. 
* gnu/packages/bioinformatics.scm (star): Update to 2.5.1b.
[source]: Remove bundled htslib sources and pre-built binaries.
[arguments]: Add phase "do-not-use-bundled-htslib".
[inputs]: Add "htslib".
 2016-01-23 08:40:14 +01:00
Ricardo Wurmus c0266e8d03 gnu: star: Use "modify-phases" syntax. 
* gnu/packages/bioinformatics.scm (star)[arguments]: Use "modify-phases"
  syntax.
 2016-01-23 08:40:14 +01:00
Efraim Flashner ebf89f134c gnu: fuse: Update to 2.9.5 [fixes CVE-2016-1233]. 
* gnu/packages/linux.scm (fuse): Update to 2.9.5.
 2016-01-22 09:00:34 +02:00
宋文武 6871628999 gnu: mozjs: Make milestone.pl compatible with Perl 5.22+. 
* gnu/packages/gnuzilla.scm (mozjs, mozjs-24)[source]: Add snippet.
 2016-01-22 14:42:10 +08:00
Eric Bavier b6d937d99e gnu: american-fuzzy-lop: Update to 1.96b. 
* gnu/packages/debug.scm (american-fuzzy-lop): Update to 1.96b.
  [arguments]: Create symbolic link to custom qemu, rather than copying.
 2016-01-21 23:54:48 -06:00
Eric Bavier 2d8211ab30 gnu: american-fuzzy-lop: Fix qemu configure flags. 
Fixes regression introduced in 06da1a6.

* gnu/packages/debug.scm (american-fuzzy-lop)[qemu]: Override inherited
  #:configure-flags.
 2016-01-21 23:54:48 -06:00
Eric Bavier 1022da10e1 gnu: texi2html: Disable tests. 
* gnu/packages/texinfo.scm (texi2html): New 'arguments' field.
 2016-01-21 22:09:42 -06:00
Leo Famulari 765973cd65 gnu: Add iftop. 
* gnu/packages/admin.scm (iftop): New variable.
 2016-01-21 20:21:19 -05:00
Leo Famulari c2af02602a Revert "gnu: Add iftop." 
This reverts commit 45da8c6dd1.
 2016-01-21 20:11:21 -05:00
Leo Famulari 45da8c6dd1 gnu: Add iftop. 
* gnu/packages/admin.scm (iftop): New variable.
 2016-01-21 18:11:12 -05:00
Ludovic Courtès c74f0cb2b8 tests: Prevent 'http_proxy' from breaking Web server tests. 
* tests/lint.scm: Add call to 'unsetenv' to remove 'http_proxy'.
* tests/publish.scm: Likewise.
 2016-01-22 00:02:52 +01:00
Ludovic Courtès c4847f49b3 doc: Fix typo in "Locales". 
* doc/guix.texi (Locales): Add missing 's'.
 2016-01-22 00:02:52 +01:00
Ludovic Courtès 6b779207ee system: grub: Search root device by label or UUID if possible. 
Fixes <http://bugs.gnu.org/22281>.
Reported by Christopher Allan Webber <cwebber@dustycloud.org>.

* gnu/system/grub.scm (eye-candy): Add 'root-fs' parameter.  Replace
'search --file' command in the output with whatever 'grub-root-search'
returns.
(grub-root-search): New procedure.
(grub-configuration-file): Add 'store-fs' parameter.  Use
'grub-root-search' instead of hard-coded 'search --file' commands.
* gnu/system.scm (store-file-system,
operating-system-store-file-system): New procedures.
(operating-system-grub.cfg): Use it, and adjust call to
'grub-configuration-file'.
* tests/system.scm: New file.
* Makefile.am (SCM_TESTS): Add it.
 2016-01-22 00:02:52 +01:00
Mark H Weaver 3738d8700f gnu: ffmpeg: Update to 2.8.5. 
* gnu/packages/video.scm (ffmpeg): Update to 2.8.5.
 2016-01-21 10:30:21 -05:00
Mark H Weaver 0c0207a93b gnu: gajim: Update to 0.16.5 [fixes CVE-2015-8688]. 
* gnu/packages/messaging.scm (gajim): Update to 0.16.5.
  [arguments]: Disable tests.
 2016-01-21 10:24:44 -05:00
Ricardo Wurmus 6c92d8dd35 gnu: bind-utils: Build and install "nsupdate". 
* gnu/packages/dns.scm (bind-utils)[arguments]: Build and install
  "nsupdate" executable.
 2016-01-21 15:53:35 +01:00
Ricardo Wurmus bd0eb6672b gnu: bind-utils: Generalize "build" and "install" phases. 
* gnu/packages/dns.scm (bind-utils)[arguments]: Generalize "build" and
  "install" phases.
 2016-01-21 15:53:35 +01:00