ryan77627/guix
1
0
Fork 0
mirror of https://git.in.rschanz.org/ryan77627/guix.git synced 2024-12-26 14:28:15 -05:00
Code Issues Projects Releases Packages Wiki Activity Actions
6703 commits 1 branch 0 tags 448 MiB
Commit graph

4258 commits

Author SHA1 Message Date
Taylan Ulrich Bayırlı/Kammer
90ea9863c8 gnu: serd: Set rpath via LDFLAGS. 
Fixes <http://bugs.gnu.org/20051>.

* gnu/packages/rdf.scm (serd): Add a pre-configure phase setting $LDFLAGS to
  set the rpath to $out/lib.
 2015-04-30 16:34:36 +02:00
Taylan Ulrich Bayırlı/Kammer
a0a0b7162e gnu: wxwidgets: Set rpath in LDFLAGS. 
Fixes <http://bugs.gnu.org/20049>.

* gnu/packages/wxwidgets.scm (wxwidgets): Add a make flag to set rpath to
  $out/lib via LDFLAGS.
 2015-04-30 15:35:07 +02:00
Ludovic Courtès
9e7594027d gnu: gcc: Add link to upstream bug report. 
* gnu/packages/gcc.scm (gcc-4.8): Add link to bug report in comment.
 2015-04-30 13:43:55 +02:00
Ludovic Courtès
7e35b9dd3d gnu: gcc: Add $libdir to the RUNPATH of libvtv.so. 
* gnu/packages/gcc.scm (gcc-4.9): Inherit from GCC-4.8.
  [source]: Add 'gcc-libvtv-runpath.patch'.
  (gcc-5.1): Inherit from GCC-4.9.
  [source]: Use patches from GCC-4.9.
* gnu/packages/patches/gcc-libvtv-runpath.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
 2015-04-30 13:31:59 +02:00
Taylan Ulrich Bayırlı/Kammer
372cf03981 gnu: libva: Patch a dlopen call, set drivers path. 
* gnu/packages/video.scm (libva): Patch the reference to libva-x11.so (passed
  to dlopen()) to use an absolute path.  Add --with-drivers-path= to
  #:configure-flags with a value pointing to mesa's $prefix/lib/dri.
 2015-04-30 09:20:48 +02:00
Ludovic Courtès
d9c41939bd install: Make /var/lock. 
Reported by 宋文武 <iyzsong@gmail.com>.

* gnu/build/install.scm (directives): Add /var/lock.
 2015-04-29 22:27:46 +02:00
宋文武
b416c647e9 gnu: jack2: Add $libdir to the RUNPATH of all the binaries. 
* gnu/packages/audio.scm (jack2)[arguments]: Add #:phases.
 2015-04-30 00:03:10 +08:00
宋文武
27c4f0cc03 gnu: Remove gstreamer-0.10 and gst-plugins-base-0.10. 
* gnu/packages/gstreamer.scm (gstreamer-0.10, gst-plugins-base-0.10):
  Remove variables.
* gnu/packages/patches/gstreamer-0.10-bison3.patch,
  gnu/packages/patches/gstreamer-0.10-silly-test.patch: Remove files.
* gnu-system.am (dist_patch_DATA): Remove them.
 2015-04-29 16:19:52 +08:00
宋文武
3ec4bba4c9 gnu: Add xmp. 
* gnu/packages/audio.scm (xmp): New variable.
 2015-04-29 14:51:31 +08:00
宋文武
b97b5cda3b gnu: Add libxmp. 
* gnu/packages/audio.scm (libxmp): New variable.
 2015-04-29 14:51:31 +08:00
宋文武
a176dd7e24 gnu: Add libmodplug. 
* gnu/packages/audio.scm (libmodplug): New variable.
 2015-04-29 11:03:48 +08:00
Ricardo Wurmus
310d218f64 gnu: Add python-tornado. 
* gnu/packages/python.scm (python-tornado, python2-tornado): New variables.
 2015-04-28 17:01:01 +02:00
Ricardo Wurmus
ed377cc6cf gnu: Add python2-backport-ssl-match-hostname. 
* gnu/packages/python.scm (python2-backport-ssl-match-hostname): New variable.
 2015-04-28 17:01:01 +02:00
Ricardo Wurmus
f67890477a gnu: Add icedtea7. 
* gnu/packages/java.scm (icedtea7): New variable.
 2015-04-28 12:08:08 +02:00
宋文武
e32316e62f gnu: cmake: Disable parallel tests. 
* gnu/packages/cmake.scm (cmake)[arguments]: Add #:parallel-tests?.
  Set 'CTEST_OUTPUT_ON_FAILURE' to 'TRUE' in 'set-paths phase.
 2015-04-28 17:16:18 +08:00
宋文武
477a752e89 gnu: cmake: Update to 3.2.2. 
* gnu/packages/cmake.scm (cmake): Update to 3.2.2.
* gnu/packages/patches/cmake-fix-tests.patch: Skip test for BundleUtilities.
 2015-04-28 15:45:54 +08:00
Andreas Enge
7b4570b4fb gnu: Add ixion. 
* gnu/packages/libreoffice.scm: New file.
* gnu-system.am (GNU_SYSTEM_MODULES): Add it.

Co-authored-by: John Darrington <jmd@gnu.org>
 2015-04-27 22:12:18 +02:00
Christopher Allan Webber
67fa7a27fb gnu: Add extremetuxracer. 
* gnu/packages/games.scm (extremetuxracer): New variable.
 2015-04-27 14:12:00 -04:00
Alex Kost
85a02905e4 gnu: imlib2: Update to 1.4.7. 
* gnu/packages/image.scm (imlib2): Update to 1.4.7.
 2015-04-27 20:56:00 +03:00
Ricardo Wurmus
47c8ba5a51 gnu: icedtea6: Split test fixing phases. 
* gnu/packages/java.scm (icedtea6)[arguments]: Split phase 'fix-tests into
  three phases 'fix-test-framework, 'fix-hotspot-tests, and 'fix-jdk-tests.
 2015-04-27 15:13:35 +02:00
Ricardo Wurmus
4ca009c036 gnu: flexbar: Enable tests. 
* gnu/packages/bioinformatics.scm (flexbar): Enable tests.
 2015-04-27 15:12:47 +02:00
Ricardo Wurmus
02ed8be3ac gnu: tbb: Set rpath in LDFLAGS. 
* gnu/packages/tbb.scm (tbb)[arguments]: Set rpath to "/lib" output directory
  in LDFLAGS.
 2015-04-27 15:12:46 +02:00
David Thompson
5809ffccc5 gnu: Add sfml. 
* gnu/packages/game-development.scm (sfml): New variable.
 2015-04-27 08:35:40 -04:00
宋文武
7482b3403b gnu: mpv: Update to 0.9.0. 
* gnu/packages/video.scm (mpv): Update to 0.9.0.
 2015-04-27 16:58:00 +08:00
宋文武
27350ef8bf gnu: ffmpeg: Don't use patchelf. 
* gnu/packages/video.scm (ffmpeg)[inputs]: Remove patchelf.
  [arguments]: Remove #:modules, #:imported-modules and 'add-lib-to-runpath
  phase.  Pass '--extra-ldflags=-Wl,-rpath=$libdir' to `configure'.
 2015-04-27 15:24:58 +08:00
宋文武
769436b862 gnu: ffmpeg: Update to 2.6.2. 
* gnu/packages/video.scm (ffmpeg): Update to 2.6.2.
 2015-04-27 15:24:58 +08:00
Christopher Allan Webber
6bc2406315 gnu: Add guile-minikanren. 
* gnu/packages/guile.scm (guile-minikanren): New variable.
 2015-04-26 21:38:37 -04:00
Andreas Enge
4ac0d6444d Merge branch 'master' into core-updates. 2015-04-26 20:08:49 +02:00
Andreas Enge
7bde30e18d gnu: evas-generic-loaders: Update to 1.13.2. 
* gnu/packages/enlightenment.scm (evas-generic-loaders): Update to 1.13.2.
  Use https for the URL to avoid a redirection.
 2015-04-26 17:44:47 +02:00
Andreas Enge
c514385197 gnu: gpgme: Update to 1.5.4. 
* gnu/packages/gnupg.scm (gpgme): Update to 1.5.4.
 2015-04-26 17:24:51 +02:00
Andreas Enge
003e8d5e04 Merge branch 'wip-glib' into master. 
Conflicts:
	gnu/packages/package-management.scm
 2015-04-26 16:05:39 +02:00
Ricardo Wurmus
f62a8417ba gnu: Add calf plugins. 
* gnu/packages/audio.scm (calf): New variable.
 2015-04-26 15:59:13 +02:00
Ricardo Wurmus
e4f43b56c3 gnu: Add fluidsynth. 
* gnu/packages/audio.scm (fluidsynth): New variable.
 2015-04-26 15:59:01 +02:00
Andreas Enge
f763eaaaf9 gnu: Add mdds. 
* gnu/packages/boost.scm (mdds): New variable.
 2015-04-26 14:38:23 +02:00
David Thompson
378b01dc09 gnu: Add gitolite. 
* gnu/packages/version-control.scm (gitolite): New variable.
* gnu/packages/patches/gitolite-openssh-6.8-compat.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
 2015-04-24 10:04:08 -04:00
David Thompson
f93b916c3d gnu: nginx: Update to 1.8.0. 
* gnu/packages/web.scm (nginx): Update to 1.8.0.
 2015-04-24 08:08:02 -04:00
Mark H Weaver
23d00fb0ed gnu: wpa-supplicant: Add fix for CVE-2015-1863. 
* gnu/packages/patches/wpa-supplicant-CVE-2015-1863.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/admin.scm (wpa-supplicant): Add patch.
 2015-04-23 20:32:35 -04:00
Ricardo Wurmus
3c43bcc68d gnu: r: Update to 3.2.0. 
* gnu/packages/statistics.scm (r): Update to 3.2.0.
 2015-04-23 13:07:11 +02:00
Ricardo Wurmus
ff2b1c17b8 gnu: r: Set library rpath. 
* gnu/packages/statistics.scm (r)[arguments]: Add the rpath for lib directory
  of output to LDFLAGS.
 2015-04-23 13:07:10 +02:00
Mark H Weaver
9020890b21 gnu: postgresql: Update to 9.3.6. 
* gnu/packages/databases.scm (postgresql): Update to 9.3.6.  Use .bz2 tarball.
 2015-04-23 06:28:54 -04:00
Mark H Weaver
ee886454bb gnu: notmuch: Update to 0.19; add man pages and bash completion. 
* gnu/packages/mail.scm (notmuch)[source]: Update to 0.19.
  [arguments]: In 'configure' phase, set CC environment variable.  Arrange to
  use rst2man.py instead of rst2man.
  [native-inputs]: Add python-2, python2-docutils, and bash-completion.
 2015-04-23 06:08:18 -04:00
Mark H Weaver
60e2d5fe82 gnu: Add gcc-5.1.0 and gcc-toolchain-5.1.0. 
* gnu/packages/gcc.scm (gcc-5.1): New variable.
* gnu/packages/commencement.scm (gcc-toolchain-5.1): New variable.
 2015-04-23 01:06:40 -04:00
Mark H Weaver
a635ed5ccb gnu: Add missing (gnu packages gettext) module import. 
This is a followup to 6162b95d21.

* gnu/packages/base.scm: Import (gnu packages gettext).
 2015-04-22 21:49:46 -04:00
宋文武
2f8339c8ab gnu: xfce4-settings: Add more inputs. 
* gnu/packages/xfce.scm (xfce4-settings)[inputs]: Add libxklavier,
  upower and xf86-input-libinput.
 2015-04-23 07:38:26 +08:00
宋文武
53fd3cf051 gnu: libinput: Update to 0.14.1. 
* gnu/packages/freedesktop.scm (libinput): Update to 0.14.1.
 2015-04-23 07:37:44 +08:00
宋文武
e3cadebaf0 gnu: Add xf86-input-libinput. 
* gnu/packages/xorg.scm (xf86-input-libinput): New variable.
 2015-04-23 07:35:56 +08:00
Mark H Weaver
0dec8f8c13 gnu: guix: Update development snapshot. 
* gnu/packages/package-management.scm (guix-devel): Update to fc34dee.
 2015-04-22 18:19:54 -04:00
Ludovic Courtès
d485ebba42 gnu: gcc: Do not always disable RUNPATH validation. 
* gnu/packages/gcc.scm (gcc-4.7)[arguments]: Remove explicit
  #:validate-runpath? #f.
* gnu/packages/commencement.scm (gcc-boot0)[arguments]: Remove case for
  #:validate-runpath?.
  (gcc-final)[arguments]: Add literal #:validate-runpath? #f.
* gnu/packages/cross-base.scm (cross-gcc-arguments): Remove case for
  #:validate-runpath?.
 2015-04-23 00:06:37 +02:00
Ludovic Courtès
21e583def3 gnu: gcc: Add a RUNPATH to libstdc++.so so that it finds libgcc_s.so. 
Fixes <http://bugs.gnu.org/20358>.
Reported by 宋文武 <iyzsong@gmail.com>.

* gnu/packages/gcc.scm (gcc-4.7)[arguments]: Add 'substitute*' form for
  "libstdc++-v3/src/Makefile.in".
 2015-04-23 00:06:37 +02:00
Ludovic Courtès
669b8639a2 gnu: commencement: Remove unneeded configure flag for bootstrap gettext. 
* gnu/packages/commencement.scm (gettext-boot0): Remove unneeded
  --disable-threads.
 2015-04-23 00:06:37 +02:00
Eric Bavier
cc8ddcb097 gnu: perl: Fix Module::Pluggable for symlink forests. 
* gnu/packages/patches/perl-module-pluggable-search.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/perl.scm (perl)[source]: Add patch.
 2015-04-22 14:38:14 -05:00
Mark H Weaver
76eb726617 gnu: ccl: Add default 'match' cases for unsupported platforms. 
* gnu/packages/lisp.scm (ccl)[arguments]: Add default 'match' cases for
  unsupported platforms.
 2015-04-22 15:08:45 -04:00
Mark H Weaver
4788deea0b gnu: nginx: Fix configure flags on unsupported platforms. 
* gnu/packages/web.scm (nginx)[arguments]: Add default case in 'match' form
  within 'configure' phase.
 2015-04-22 15:08:45 -04:00
Mark H Weaver
f0d6d83552 gnu: mplayer: Fix configure flags on armhf. 
* gnu/packages/video.scm (mplayer)[arguments]: Add default case in 'match'
  form in configure flags.  Enable support for arm processor features that are
  assumed by our armhf port.
 2015-04-22 15:08:45 -04:00
Mark H Weaver
446c7e4de3 gnu: julia: Fix make-flags on non-Intel platforms. 
* gnu/packages/julia.scm (julia)[arguments]: Add default case in 'match' form.
 2015-04-22 15:08:45 -04:00
宋文武
f8f63893be gnu: gtkmm-2: Update to 2.24.4. 
* gnu/packages/gtk.scm (gtkmm-2): Update to 2.24.4.
 2015-04-22 14:59:45 +08:00
宋文武
09a5c4c363 gnu: gtkmm: Update to 3.16.0. 
* gnu/packages/gtk.scm (gtkmm): Update to 3.16.0.
 2015-04-22 14:54:10 +08:00
宋文武
a8054b4e5d gnu: pangomm: Update to 2.36.0. 
* gnu/packages/gtk.scm (pangomm): Update to 2.36.0.
 2015-04-22 14:53:05 +08:00
宋文武
46b9a4ffab gnu: gtk+: Update to 3.16.2. 
* gnu/packages/gtk.scm (gtk+): Update to 3.16.2.
 2015-04-22 14:52:08 +08:00
宋文武
e4c9d9bb66 gnu: cups-filters: Update to 1.0.68. 
* gnu/packages/cups.scm (cups-filters): Update to 1.0.68.
 2015-04-22 14:33:05 +08:00
宋文武
1ea90625e4 gnu: vala: Fix tests by setting 'CC'. 
This fixes a regression introduced in b19d680.

* gnu/packages/gnome.scm (vala)[arguments]: New field.
 2015-04-22 14:29:46 +08:00
宋文武
b19d6805a9 Remove all the 'CC=gcc' hacks for 'g-ir-scanner'. 
* gnu/packages/glib.scm (telepathy-glib)[arguments]: Remove.
* gnu/packages/gtk.scm (at-spi2-core, gtk+-2): Remove #:make-flags.
* gnu/packages/gnome.scm (libpeas, librsvg, vala, vte, json-glib,
  libxklavier, libsoup, libsecret, colord, geocode-glib, libgweather):
  Remove #:make-flags or the '(setenv "CC" "gcc")' phase.
 2015-04-22 10:44:03 +08:00
宋文武
702513b51a gnu: poppler: Update to 0.32.0. 
* gnu/packages/pdf.scm (poppler): Update to 0.32.0.
 2015-04-22 09:57:52 +08:00
宋文武
6b6795595e gnu: python-pygobject: Update to 3.16.1. 
* gnu/packages/glib.scm (python-pygobject): Update to 3.16.1.
 2015-04-22 09:57:52 +08:00
宋文武
759dd7d5b9 gnu: glibmm: Update to 2.44.0. 
* gnu/packages/glib.scm (glibmm): Update to 2.44.0.
 2015-04-22 09:57:52 +08:00
宋文武
e7a720e681 gnu: libsigc++: Update to 2.4.1. 
* gnu/packages/glib.scm (libsigc++): Update to 2.4.1.
 2015-04-22 09:57:52 +08:00
宋文武
cb77ade637 gnu: dbus-glib: Update to 0.104. 
* gnu/packages/glib.scm (dbus-glib): Update to 0.104.
 2015-04-22 09:57:51 +08:00
宋文武
3c87c02edc gnu: itstool: Update to 2.0.2. 
* gnu/packages/glib.scm (itstool): Update to 2.0.2.
 2015-04-22 09:57:51 +08:00
宋文武
cc84b08c78 gnu: gobject-introspection: Update to 1.44.0. 
* gnu/packages/glib.scm (gobject-introspection): Update to 1.44.0.
  [source]: Use mirror://gnome.
  [arguments]<#:phases>: Remove.
* gnu/packages/patches/gobject-introspection-cc.patch: Rewrite to
  set os.environ['CC'] in 'giscanner/__init__.py'.
 2015-04-22 09:57:51 +08:00
宋文武
b837e658bd gnu: python-pycairo: Fix build with with python-3.4.3. 
* gnu/packages/patches/pycairo-wscript.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/gtk.scm (python-pycairo)[source]: Use it.
  [build-system]: Use waf-build-system.
  [native-inputs]: Add python-waf.
  [arguments]<#:phases>: Use 'modify-phases'.  Add 'patch-waf phase.
* gnu/packages/gtk.scm (python2-pycairo): Adjust accordingly.
 2015-04-22 09:57:51 +08:00
宋文武
45ca81c20d gnu: Add python-waf. 
* gnu/packages/python.scm (python-waf, python2-waf): New variables.
 2015-04-22 09:57:51 +08:00
Mark H Weaver
360ebb1490 gnu: guix: Update development snapshot. 
* gnu/packages/package-management.scm (guix-devel): Update to dd3a42e.
 2015-04-22 09:57:51 +08:00
Mark H Weaver
3a5bce15d9 gnu: guix: Don't install in /etc/bash_completion.d within build environment. 
Fixes <http://bugs.gnu.org/20394>.
Patch by Ludovic Courtès <ludo@gnu.org>.

* gnu/packages/package-management.scm (guix)[arguments]: Pass
  "--with-bash-completion-dir" option to configure.
 2015-04-22 09:57:51 +08:00
宋文武
f210f057a7 gnu: python-pycairo: Fix build with with python-3.4.3. 
* gnu/packages/patches/pycairo-wscript.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/gtk.scm (python-pycairo)[source]: Use it.
  [build-system]: Use waf-build-system.
  [native-inputs]: Add python-waf.
  [arguments]<#:phases>: Use 'modify-phases'.  Add 'patch-waf phase.
* gnu/packages/gtk.scm (python2-pycairo): Adjust accordingly.
 2015-04-22 09:53:34 +08:00
宋文武
feaae48499 gnu: Add python-waf. 
* gnu/packages/python.scm (python-waf, python2-waf): New variables.
 2015-04-22 09:53:24 +08:00
Mark H Weaver
aad8877d91 gnu: guix: Update development snapshot. 
* gnu/packages/package-management.scm (guix-devel): Update to dd3a42e.
 2015-04-21 21:30:23 -04:00
Mark H Weaver
f1a7fd7029 gnu: libxfont: Update to 1.5.1. 
* gnu/packages/xorg.scm (libxfont): Update to 1.5.1.
 2015-04-21 19:11:24 -04:00
Mark H Weaver
dd3a42e624 gnu: guix: Don't install in /etc/bash_completion.d within build environment. 
Fixes <http://bugs.gnu.org/20394>.
Patch by Ludovic Courtès <ludo@gnu.org>.

* gnu/packages/package-management.scm (guix)[arguments]: Pass
  "--with-bash-completion-dir" option to configure.
 2015-04-21 19:04:34 -04:00
Mark H Weaver
d8d6d096be gnu: tzdata: Update to 2015c. 
* gnu/packages/base.scm (tzdata): Update to 2015c.
 2015-04-21 19:03:25 -04:00
Andreas Enge
30536f2c8b gnu: libidn: Update to 1.30. 
* gnu/packages/libidn.scm (libidn): Update to 1.30.
 2015-04-21 18:57:28 -04:00
Mark H Weaver
54b76b60d9 Revert "gnu: libidn: Update to 1.30." 
This reverts commit 8462a03f28.
 2015-04-21 17:47:34 -04:00
Andreas Enge
8462a03f28 gnu: libidn: Update to 1.30. 
* gnu/packages/libidn.scm (libidn): Update to 1.30.
 2015-04-21 22:59:50 +02:00
Andreas Enge
8185519dba gnu: ocrad: Update to 0.25. 
* gnu/packages/ocr.scm (ocrad): Update to 0.25.
 2015-04-21 22:57:29 +02:00
Ludovic Courtès
6162b95d21 gnu: glibc: Add dependency on Gettext, to install the message catalogs. 
This fixes a bug whereby the libc.mo files were not installed, and thus
translations of libc's messages were not available.

* gnu/packages/commencement.scm (gettext-boot0): New variable.
  (glibc-final)[native-inputs]: New field.
* gnu/packages/base.scm (glibc)[native-inputs]: Add GNU-GETTEXT.
 2015-04-21 22:53:09 +02:00
Ricardo Wurmus
6260d1a869 gnu: Add TuxGuitar. 
* gnu/packages/music.scm (tuxguitar): New variable.
 2015-04-21 21:51:38 +02:00
Ricardo Wurmus
8581c81307 gnu: Add SWT. 
* gnu/packages/java.scm (swt): New variable.
 2015-04-21 21:51:38 +02:00
Ludovic Courtès
ef593a103d gnu: libltdl: Remove unneeded patch. 
* gnu/packages/autotools.scm (libltdl)[source]: Remove 'patches'.
 2015-04-21 21:16:24 +02:00
Ludovic Courtès
4a2b74bf4c gnu: ld-wrapper: Ignore the .so argument following '-dynamic-linker'. 
Reported at <http://bugs.gnu.org/20102>.

* gnu/packages/ld-wrapper.in (library-files-linked): Rename 'path+files'
  to 'path+files+args'.  Thread the reverse list of previous arguments.
  Add case for when the previous argument is "-dynamic-linker".
 2015-04-21 21:14:28 +02:00
Ludovic Courtès
4267c637d6 gnu: ld-wrapper: Add debugging info. 
* gnu/packages/ld-wrapper.in (ld-wrapper): Add "libraries linked"
  debugging statement.
 2015-04-21 21:08:44 +02:00
Ludovic Courtès
cbbb11c8a0 gnu: Rename ld-wrapper2 to ld-wrapper. 
* gnu/packages/ld-wrapper2.in: Rename to...
* gnu/packages/ld-wrapper.in: ... this.
* gnu-system.am (MISC_DISTRO_FILES): Remove ld-wrapper2.in.
* gnu/packages/commencement.scm (fixed-ld-wrapper): Remove.
  (gcc-toolchain): Restore pre-77db91ad inputs.
 2015-04-21 21:07:11 +02:00
Ricardo Wurmus
e4e5a4d88f gnu: Add eXpress. 
* gnu/packages/bioinformatics.scm (express): New variable.
 2015-04-21 17:57:22 +02:00
Ricardo Wurmus
9794180d5e gnu: Add bamtools. 
* gnu/packages/bioinformatics.scm (bamtools): New variable.
 2015-04-21 17:57:22 +02:00
Ricardo Wurmus
dbf4ed7c91 gnu: Add subread. 
* gnu/packages/bioinformatics.scm (subread): New variable.
 2015-04-21 10:46:23 +02:00
Ludovic Courtès
3392ce5d60 system: Make /gnu/store a read-only bind mount by default. 
* gnu/system/file-systems.scm (%immutable-store): New variable.
  (%base-file-systems): Add it.
* doc/guix.texi (File Systems): Document it.
 2015-04-20 22:21:51 +02:00
Ludovic Courtès
b86fee7848 file-systems: Use a second 'mount' call for read-only bind mounts. 
* gnu/build/file-systems.scm (MS_REMOUNT): New constant.
  (mount-file-system): Add 'flags' local variable.   When FLAGS has
  MS_BIND & MS_RDONLY, call 'mount' with MS_REMOUNT.
* gnu/services/base.scm (file-system-service) <start>: Likewise.
 2015-04-20 22:16:13 +02:00
Ludovic Courtès
38cf2ba084 gnu: Remove all #:select from (gnu packages ...) modules. 
This works around Guile bug <http://bugs.gnu.org/15540>.
Reported by Andreas Enge <andreas@enge.fr>.

* gnu/packages/engineering.scm: Don't #:select from (gnu packages ...).
* gnu/packages/gcc.scm: Likewise.
* gnu/packages/package-management.scm: Likewise.
* gnu/packages/photo.scm: Likewise.
* gnu/packages/pulseaudio.scm: Likewise.
* gnu/packages/moe.scm: Likewise, and #:select from (guix licenses)
  instead.
 2015-04-20 15:50:59 +02:00
Ricardo Wurmus
51c649992e gnu: Add sra-tools. 
* gnu/packages/bioinformatics.scm (sra-tools): New variable.
 2015-04-20 15:29:17 +02:00
Ricardo Wurmus
75dd242480 gnu: Add NCBI VDB. 
* gnu/packages/bioinformatics.scm (ncbi-vdb): New variable.
 2015-04-20 15:29:17 +02:00
Ricardo Wurmus
2651a5e695 gnu: Add NGS Java bindings. 
* gnu/packages/bioinformatics.scm (ngs-java): New variable.
 2015-04-20 15:29:16 +02:00
Ricardo Wurmus
282c5087b4 gnu: Add NGS SDK. 
* gnu/packages/bioinformatics.scm (ngs-sdk): New variable.
 2015-04-20 15:28:58 +02:00