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5442 Commits

Author SHA1 Message Date
Ricardo Wurmus 92cb152b37 gnu: Add snakemake. 
* gnu/packages/python.scm (snakemake): New variable.
 2015-03-03 10:22:23 +01:00
Mark H Weaver bbd0ea77ef gnu: libuv: Update to 1.4.2. 
* gnu/packages/libevent.scm (libuv): Update to 1.4.2.  Update source URI.
  Add 'file-name' field to origin.  Move 'autogen' phase after 'unpack'.
  Run "sh autogen.sh" instead of "./autogen.sh".
 2015-03-02 20:35:32 -05:00
Mark H Weaver 2ecebec142 gnu: skribilo: Adapt to recently renamed 'guile-reader' variable. 
This is a followup to commit d6d9f1f715.

* gnu/packages/skribilo.scm (skribilo)[propagated-inputs]: Change
  'guile-reader/guile-2.0' --> 'guile-reader'.
 2015-03-02 19:53:42 -05:00
Paul van der Walt 136770c9c7 gnu: Add girara. 
* gnu/packages/gtk.scm (girara): Add variable.
 2015-03-02 23:37:36 +01:00
Paul van der Walt 4ac696c68b gnu: check: Update version to 0.9.14 
* gnu/packages/check.scm (check): Update to version 0.9.14.
 2015-03-02 23:37:35 +01:00
Paul van der Walt 58acabc368 gnu: mpd: Update to 0.19.9. 
* gnu/packages/mpd.scm (mpd): Update version to 0.19.9. Add boost and
  icu4c.
 2015-03-02 23:37:35 +01:00
David Thompson bda0c1392a gnu: Add ruby-hoe. 
* gnu/packages/ruby.scm (ruby-hoe): New variable.
 2015-03-02 17:33:53 -05:00
David Thompson f3c96d474f build: ruby: Install executables in /bin. 
* guix/build/ruby-build-system.scm (install): Add '--bindir' flag to gem
  command.
 2015-03-02 17:33:53 -05:00
David Thompson 7e7c6a1ac0 build: ruby: Add gitify phase. 
* guix/build-system/ruby.scm (lower): Add git as implicit input.
* guix/build/ruby-build-system.scm (gitify): New procedure.
  (%standard-phases): Add gitify phase.
 2015-03-02 17:33:53 -05:00
David Thompson 927ff2c379 gnu: Add mpdscribble. 
* gnu/packages/mpd.scm (mpdscribble): New variable.
 2015-03-02 17:31:40 -05:00
Ludovic Courtès 993300f6cc system: Create a single-file certificate bundle in /etc/ssl/certs. 
Suggested by Mark H Weaver <mhw@netris.org>.

* gnu/system.scm (certificate-bundle): New procedure.
  (etc-directory): Use it.
  [profile]: Set 'SSL_CERT_DIR', 'SSL_CERT_FILE', and 'GIT_SSL_CAINFO'.
 2015-03-02 23:05:13 +01:00
Ludovic Courtès e979e6dd52 system: Add 'x509-certificates' field, and populate /etc/ssl/certs. 
* gnu/system.scm (<operating-system>)[x509-certificates]: New field.
  (etc-directory): Add #:x509-certificates parameter and honor it.
  (operating-system-etc-directory): Pass #:x509-certificates in
  'etc-directory' call.
* doc/guix.texi (operating-system Reference): Document
  'x509-certificates'.
 2015-03-02 22:32:54 +01:00
Ludovic Courtès d6d9f1f715 gnu: Remove 'guile-reader-for-guile_1.8'. 
This was a useful example back in July 2012, but not very useful
beyond that.

* gnu/packages/guile.scm (guile-reader): Turn into a plain package.
  [source]: Use mirror:// URI.
  [inputs]: Use GUILE-2.0.
  [arguments]: Use the site/2.0 directory for --with-moduledir.
  (guile-reader/guile-1.8, guile-reader/guile-2.0): Remove.
 2015-03-02 21:40:53 +01:00
Ludovic Courtès 16c33bfb07 services: xorg: Fix file descriptor leak from SLiM/xinitrc. 
This reverts commit 9515b74554.

* gnu/services/xorg.scm (xinitrc)[builder](close-all-fdes): Start from
  file descriptor 3.
 2015-03-02 20:34:37 +01:00
Mark H Weaver 1204c5100e gnu: Add llvm-3.6.0 and clang-3.6.0. 
* gnu/packages/llvm.scm (llvm): Update to 3.6.0.
  (clang-from-llvm): New procedure.
  (clang): Update to 3.6.0.  Reimplement using 'clang-from-llvm'.
  (llvm-3.5, clang-3.5): New variables.
 2015-03-02 12:08:56 -05:00
Ricardo Wurmus 191c710139 gnu: Add crossmap. 
* gnu/packages/bioinformatics.scm (crossmap): New variable.
* gnu/packages/patches/crossmap-allow-system-pysam.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
 2015-03-02 17:23:56 +01:00
宋文武 1385d37a6e gnu: gtk-xfce-engine: Update to 2.10.0. 
* gnu/packages/xfce.scm (gtk-xfce-engine): Update to 2.10.0.
 2015-03-02 21:27:42 +08:00
Ricardo Wurmus 810cff8557 gnu: Add CLIPper. 
* gnu/packages/bioinformatics.scm (clipper): New variable.
 2015-03-02 14:11:54 +01:00
Ricardo Wurmus 240ca4aae7 gnu: Add Scikit-learn. 
* gnu/packages/python.scm (python-scikit-learn, python2-scikit-learn): New
  variables.
 2015-03-02 14:09:10 +01:00
宋文武 b283679951 gnu: xfconf: Re-enable tests. 
* gnu/packages/xfce.scm (xfconf)[arguments]: Add #:phases.
 2015-03-02 20:37:21 +08:00
Ricardo Wurmus d57e6d0f8e gnu: Add MACS. 
* gnu/packages/bioinformatics.scm (macs): New variable.
 2015-03-02 11:33:13 +01:00
Ricardo Wurmus a2fb1492af gnu: Add pybedtools. 
* gnu/packages/bioinformatics.scm (python2-pybedtools): New variable.
 2015-03-02 11:32:10 +01:00
Ricardo Wurmus 8d12be1eb1 gnu: Add pyyaml. 
* gnu/packages/python.scm (python-pyyaml, python2-pyyaml): New variables.
 2015-03-02 11:31:14 +01:00
Mark H Weaver 649b5e1bd4 gnu: libotr: Update to 4.1.0. 
* gnu/packages/messaging.scm (libotr): Update to 4.1.0.
 2015-03-02 00:09:09 -05:00
Mark H Weaver 9515b74554 Revert "services: xorg: Fix file descriptor leak from SLiM/xinitrc." 
This reverts commit ec4a4c46ef,
because it broke XFCE.
 2015-03-01 23:57:23 -05:00
Mark H Weaver e013220eb6 gnu: xfconf: Update to 4.12.0. 
* gnu/packages/xfce.scm (xfconf): Update to 4.12.0.  Disable tests.
 2015-03-01 20:16:45 -05:00
Mark H Weaver f6176e7870 gnu: gnu-pw-mgr: Update to 1.3. 
* gnu/packages/gnu-pw-mgr.scm (gnu-pw-mgr): Update to 1.3.
 2015-03-01 19:44:13 -05:00
Mark H Weaver 0a5c308782 gnu: sharutils: Update to 4.15. 
* gnu/packages/compression.scm (sharutils): Update to 4.15.
 2015-03-01 19:42:57 -05:00
Mark H Weaver 5245251eaa gnu: gdb: Update to 7.9. 
* gnu/packages/gdb.scm (gdb): Update to 7.9.
 2015-03-01 19:35:46 -05:00
Mark H Weaver afff9058a0 gnu: gnupg: Update to 2.0.27. 
* gnu/packages/gnupg.scm (gnupg): Update to 2.0.27.
 2015-03-01 19:02:49 -05:00
Ludovic Courtès 6b9540bcff gnu: wget: Update to 1.16.2. 
* gnu/packages/wget.scm (wget): Update to 1.16.2.
  [inputs]: Add PKG-CONFIG.
 2015-03-01 22:22:43 +01:00
Ludovic Courtès ec35d36495 gnu: libpsl: Fix link flag in 'libpsl.pc'. 
* gnu/packages/web.scm (libpsl)[source]: Add 'snippet' and 'modules'
  fields.
 2015-03-01 22:22:43 +01:00
Ludovic Courtès 9041d935c4 gnu: gnupg-1: Update to 1.4.19. 
* gnu/packages/gnupg.scm (gnupg-1): Update to 1.4.19.
 2015-03-01 22:22:43 +01:00
Taylan Ulrich Bayırlı/Kammer cb03a9b6a2 gnu: ecl: Update to version 15.2.21. 
* gnu/packages/lisp.scm (ecl): Update to version 15.2.21, and disable the test
  suite because ECL now fails to initialize during 'make check'.
 2015-03-01 21:29:33 +01:00
Mathieu Lirzin 76212b57f6 gnu: Add xbindkeys. 
* gnu/packages/xdisorg.scm (xbindkeys): New variable.
 2015-03-01 11:22:19 -05:00
Ricardo Wurmus eb0fb087b9 gnu: Add AlsaModularSynth. 
* gnu/packages/audio.scm (alsa-modular-synth): New variable.
 2015-03-01 17:07:51 +01:00
Ricardo Wurmus 631ac903b6 gnu: Add clalsadrv. 
* gnu/packages/audio.scm (clalsadrv): New variable.
 2015-03-01 17:07:44 +01:00
宋文武 8ccf68f9e0 gnu: xfwm4: Add inputs libdrm and libxdamage. 
* gnu/packages/xfce.scm (xfwm4): Add libdrm and libxdamage to inputs.
 2015-03-01 18:41:57 +08:00
宋文武 39a4d761c7 gnu: xfwm4: Update to 4.12.0. 
* gnu/packages/xfce.scm (xfwm4): Update 4.12.0.
 2015-03-01 18:41:02 +08:00
宋文武 046bcf2952 gnu: xfdesktop: Update to 4.12.0. 
* gnu/packages/xfce.scm (xfdesktop): Update to 4.12.0.
 2015-03-01 18:38:52 +08:00
宋文武 ad1540062b gnu: thunar-volman: Update to 0.8.1. 
* gnu/packages/xfce.scm (thunar-volman): Update to 0.8.1.
 2015-03-01 18:38:39 +08:00
宋文武 78daf79be1 gnu: thunar: Update to 1.6.6. 
* gnu/packages/xfce.scm (thunar): Update to 1.6.6.
 2015-03-01 18:38:22 +08:00
宋文武 2998f7181f gnu: xfce4-settings: Update to 4.12.0. 
* gnu/packages/xfce.scm (xfce4-settings): Update to 4.12.0.
 2015-03-01 18:38:06 +08:00
宋文武 3d75c320fa gnu: xfce4-session: Update to 4.12.0. 
* gnu/packages/xfce.scm (xfce4-session): Update to 4.12.0.
 2015-03-01 18:37:54 +08:00
宋文武 be3db25a52 gnu: xfce4-appfinder: Update to 4.12.0. 
* gnu/packages/xfce.scm (xfce4-appfinder): Update to 4.12.0.
 2015-03-01 18:37:37 +08:00
宋文武 bcd54994f0 gnu: xfce4-panel: Update to 4.12.0. 
* gnu/packages/xfce.scm (xfce4-panel): Update to 4.12.0.
 2015-03-01 18:37:20 +08:00
宋文武 3786be080f gnu: tumbler: Update to 0.1.31. 
* gnu/packages/xfce.scm (tumbler): Update to 0.1.31.
 2015-03-01 18:37:04 +08:00
宋文武 ea3fb8f183 gnu: garcon: Update to 0.4.0. 
* gnu/packages/xfce.scm (garcon): Update to 0.4.0.
 2015-03-01 18:36:48 +08:00
宋文武 9ade90ae52 gnu: exo: Update to 0.10.3. 
* gnu/packages/xfce.scm (exo): Update to 0.10.3.
 2015-03-01 18:36:26 +08:00
宋文武 7379ffc1a0 gnu: libxfce4ui: Update to 4.12.0. 
* gnu/packages/xfce.scm (libxfce4ui): Update to 4.12.0.
 2015-03-01 18:36:12 +08:00