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283 Commits

Author SHA1 Message Date
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
Mark H Weaver 8830740643 gnu: icecat: Apply fixes for CVE-2015-{0822,0827,0831,0836}. 
* gnu/packages/patches/icecat-CVE-2015-0822.patch,
  gnu/packages/patches/icecat-CVE-2015-0827-pt-1.patch,
  gnu/packages/patches/icecat-CVE-2015-0827-pt-2.patch,
  gnu/packages/patches/icecat-CVE-2015-0827-pt-3.patch,
  gnu/packages/patches/icecat-CVE-2015-0831-pt-1.patch,
  gnu/packages/patches/icecat-CVE-2015-0831-pt-2.patch,
  gnu/packages/patches/icecat-CVE-2015-0836-pt-01.patch,
  gnu/packages/patches/icecat-CVE-2015-0836-pt-02.patch,
  gnu/packages/patches/icecat-CVE-2015-0836-pt-03.patch,
  gnu/packages/patches/icecat-CVE-2015-0836-pt-04.patch,
  gnu/packages/patches/icecat-CVE-2015-0836-pt-05.patch,
  gnu/packages/patches/icecat-CVE-2015-0836-pt-06.patch,
  gnu/packages/patches/icecat-CVE-2015-0836-pt-07.patch,
  gnu/packages/patches/icecat-CVE-2015-0836-pt-08.patch,
  gnu/packages/patches/icecat-CVE-2015-0836-pt-09.patch,
  gnu/packages/patches/icecat-CVE-2015-0836-pt-10.patch,
  gnu/packages/patches/icecat-CVE-2015-0836-pt-11.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/gnuzilla.scm (icecat)[source]: Add patches.
 2015-02-26 00:39:31 -05:00
Tomáš Čech dcaf2511d7 gnu: Fix luajit installation 
* gnu/packages/lua.scm (luajit): Apply 2 patches.
* gnu-system.am (dist_patch_DATA): Register 2 patches.
* gnu/packages/patches/luajit-no_ldconfig.patch: New file.
* gnu/packages/patches/luajit-symlinks.patch: New file.
 2015-02-26 00:43:02 +01:00
Ludovic Courtès cab6a2535a gnu: Add OpenEXR and IlmBase. 
* gnu/packages/graphics.scm (ilmbase, openexr): New variables.
* gnu/packages/patches/openexr-missing-samples.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
 2015-02-25 16:58:50 +01:00
Taylan Ulrich Bayırlı/Kammer e6caa52d85 gnu: Add cpufrequtils. 
* gnu/packages/linux.scm (cpufrequtils): New variable.
* gnu/packages/patches/cpufrequtils-fix-aclocal.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
 2015-02-25 15:27:48 +01:00
Andreas Enge da71f145c6 gnu: Add python2-rdflib. 
* gnu/packages/rdf.scm (python2-rdflib): New variable.
  (python-rdflib): Add patch.
* gnu/packages/patches/python2-rdflib-drop-sparqlwrapper.patch: New file.
* gnu-system.am (dist_patch_DATA): Register patch.
 2015-02-25 00:58:20 +01:00
Andreas Enge 8cc91fa041 gnu: Add weex. 
* gnu/packages/ftp.scm (weex): New variable.
* gnu/packages/patches/weex-vacopy.patch: New file.
* gnu-system.am (dist_patch_DATA): Register patch.
 2015-02-21 19:24:54 +01:00
Andreas Enge a34816ef6e gnu: chmlib: Patch for compilation on mips. 
* gnu/packages/patches/chmlib-inttypes.patch: New file.
* gnu-system.am (dist_patch_DATA): Register patch.
* gnu/packages/ebook.scm (chmlib): Apply patch.
 2015-02-21 10:17:10 +01:00
Ludovic Courtès aee6180c10 gnu: Add glibc-locales. 
* gnu/packages/patches/glibc-locales.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/base.scm (glibc-locales): New variable.
 2015-02-11 11:19:29 +01:00
Mark H Weaver 7747c4ca3d gnu: wicd: Fix curses client to work with urwid 1.3. 
* gnu/packages/patches/wicd-urwid-1.3.patch: New file.
* gnu-system (dist_patch_DATA): Add it.
* gnu/packages/wicd.scm (wicd): Add patch.
 2015-02-06 15:26:56 -05:00
Taylan Ulrich Bayırlı/Kammer ea119a288f gnu: Add ngircd. 
* gnu/packages/messaging.scm (ngircd): New variable.
* gnu/packages/patches/ngircd-no-dns-in-tests.patch: New file.
* gnu/packages/patches/ngircd-handle-zombies.patch: New file.
* gnu-system.am (dist_patch_DATA): Add them.
 2015-02-05 17:08:39 +01:00
宋文武 93dc836f9d gnu: Add librep. 
* gnu/packages/sawfish.scm: New file.
* gnu/packages/patches/librep-rules.mk.patch: New file.
* gnu-system.am: Add them.
 2015-02-03 22:13:00 +08:00
Mark H Weaver 3b02429c8a gnu: libvpx: Apply bug fixes. 
Fixes build on armhf.

* gnu/packages/patches/libvpx-fix-armhf-link.patch,
  gnu/packages/patches/libvpx-fix-ssse3-quantize.patch,
  gnu/packages/patches/libvpx-vp9-out-of-bounds-access.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/video.scm (libvpx): Add patches.  On armhf, add additional
  configure flags to avoid requiring support for NEON.
 2015-02-02 03:54:42 -05:00
Mark H Weaver 582100a0c0 gnu: icecat: Update to 31.4.0. 
* gnu/packages/patches/icecat-CVE-2014-1587-bug-1042567.patch,
  gnu/packages/patches/icecat-CVE-2014-1587-bug-1072847.patch,
  gnu/packages/patches/icecat-CVE-2014-1587-bug-1079729.patch,
  gnu/packages/patches/icecat-CVE-2014-1587-bug-1080312.patch,
  gnu/packages/patches/icecat-CVE-2014-1587-bug-1089207.patch,
  gnu/packages/patches/icecat-CVE-2014-1590.patch,
  gnu/packages/patches/icecat-CVE-2014-1592.patch,
  gnu/packages/patches/icecat-CVE-2014-1593.patch,
  gnu/packages/patches/icecat-CVE-2014-1594.patch,
  gnu/packages/patches/icecat-CVE-2014-8634-pt1.patch,
  gnu/packages/patches/icecat-CVE-2014-8634-pt2.patch,
  gnu/packages/patches/icecat-CVE-2014-8638-pt1.patch,
  gnu/packages/patches/icecat-CVE-2014-8638-pt2.patch,
  gnu/packages/patches/icecat-CVE-2014-8639.patch,
  gnu/packages/patches/icecat-CVE-2014-8641.patch,
  gnu/packages/patches/icecat-armhf-xpcom.patch: Remove files.
* gnu-system.am (dist_patch_DATA): Remove them.
* gnu/packages/gnuzilla.scm: Update to 31.4.0.  Remove patches.
 2015-01-30 10:54:41 -05:00
Ricardo Wurmus 241e122193 gnu: bowtie: fix build errors 
* gnu/packages/bioinformatics.scm (bowtie): Add 'supported-systems' field and
  add Makefile patch.
* gnu/packages/patches/bowtie-fix-makefile.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
 2015-01-30 10:45:27 +01:00
Mark H Weaver 5ade90ba69 Merge branch 'wip-gobject-introspection' 2015-01-25 21:15:13 -05:00
Andreas Enge 014e7dd8f0 gnu: Add python-pyqt. 
* gnu/packages/qt.scm (python-pyqt, python2-pyqt): New variables.
* gnu/packages/patches/pyqt-configure.patch: New file.
* gnu-system.am (dist_patch_DATA): Register patch.
 2015-01-25 20:10:03 +01:00
Federico Beffa 94987ebe13 gnu: gobject-introspection: Add patch. 
* gnu/packages/glib.scm (gobject-introspection): Add patch
  gobject-introspection-girepository.patch.
 2015-01-23 18:33:59 +01:00
Ludovic Courtès 9f533d60df gnu: util-linux: Update to 2.25.2. 
* gnu/packages/linux.scm (util-linux): Update to 2.25.2.  Remove
  util-linux-perl.patch, and add util-linux-tests.patch.  Adjust
  'snippet'.
  [arguments]: Remove 'patch-chkdupexe' phase.  Add 'pre-check' phase.
  [native-inputs]: Add NET-BASE.
* gnu/packages/patches/util-linux-perl.patch: Remove.
* gnu/packages/patches/util-linux-tests.patch: New file.
* gnu-system.am (dist_patch_DATA): Adjust accordingly.
 2015-01-23 16:29:19 +01:00
Marek Benc 2baf46348f gnu: nvi: Fix Berkely DB compatability issues. 
* gnu/packages/patches/nvi-db4.patch: New file.
* gnu/packages/patches/nvi-dbpagesize-binpower.patch: New file.
* gnu/packages/nvi.scm (nvi): Make use of them.
* gnu-system.am (dist_patch_DATA): Add them.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2015-01-23 09:44:42 +01:00
Federico Beffa 2474b81d96 gnu: gobject-introspection: Update to 1.42.0 and add new patch. 
* gnu/packages/glib.scm (gobject-introspection): Update to version 1.42.0.
  Add patch 'gobject-introspection-absolute-shlib-path.patch' provided by Luca
  Bruno <lucabru@src.gnome.org> for Nix.
 2015-01-18 17:44:29 +01:00
Mark H Weaver 2a666e9cfd gnu: icecat: Add fixes for CVE-2014-{8634,8638,8639,8641}. 
* gnu/packages/patches/icecat-CVE-2014-8634-pt1.patch,
  gnu/packages/patches/icecat-CVE-2014-8634-pt2.patch,
  gnu/packages/patches/icecat-CVE-2014-8638-pt1.patch,
  gnu/packages/patches/icecat-CVE-2014-8638-pt2.patch,
  gnu/packages/patches/icecat-CVE-2014-8639.patch,
  gnu/packages/patches/icecat-CVE-2014-8641.patch,
  gnu/packages/patches/icecat-armhf-xpcom.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/gnuzilla.scm (icecat)[source]: Add patches.
 2015-01-16 09:14:08 -05:00
Ludovic Courtès 57b7e1a62d Merge branch 'core-updates' 
Conflicts:
	gnu/packages/bootstrap.scm
 2015-01-16 13:27:03 +01:00
Mark H Weaver b01a0ba86e gnu: gd: Update to 2.1.1. 
* gnu/packages/patches/gd-mips64-deplibs-fix.patch: Remove file.
* gnu-system.am (dist_patch_DATA): Remove it.
* gnu/packages/gd.scm (gd): Update to 2.1.1.  Update source URI.  Remove
  patch.  Remove 'chdir' phase.  Add pkg-config to native-inputs.
 2015-01-15 20:27:57 -05:00
宋文武 2b2f91ad87 gnu: ninja: Disable testcase SubprocessTest.InterruptChild. 
* gnu/packages/patches/ninja-tests.patch: New file.
* gnu/packages/ninja.scm (ninja): Add the patch.
* gnu-system.am (dist_patch_DATA): Add it.
 2015-01-15 11:05:18 +08:00
Mark H Weaver a813710a5f Merge branch 'master' into core-updates 2015-01-13 12:14:08 -05:00
Federico Beffa beb8dc0007 gnu: libcanberra: Add default sounds support. 
* gnu/packages/libcanberra.scm (libcanberra): Add input
  'sound-theme-freedesktop'.  Add "libcanberra-sound-theme-freedesktop.patch"
  and related phase 'patch-default-sounds-directory to patch the default
  sounds directory.
 2015-01-12 18:00:08 +01:00
Mark H Weaver 798e004538 gnu: sqlite: Update to 3.8.7.4. 
* gnu/packages/patches/sqlite-large-page-size-fix.patch: Remove file.
* gnu-system.am (dist_patch_DATA): Remove it.
* gnu/packages/databases.scm (sqlite): Update to 3.8.7.4.  Remove patch.
 2015-01-11 15:28:41 -05:00
Mark H Weaver 74d72608b3 gnu: curl: Update to 7.40.0. 
* gnu/packages/patches/curl-gss-api-fix.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/curl.scm (curl): Update to 7.40.0.  Add patch.
 2015-01-11 11:12:27 -05:00
Mark H Weaver 7744885731 Merge branch 'master' into core-updates 2015-01-11 09:38:49 -05:00
宋文武 1aaaff1a7b gnu: Add nss. 
* gnu/packages/patches/nss-pkgconfig.patch: New file.
* gnu-system.scm (dist_patch_DATA): Add it.
* gnu/packages/gnuzilla.scm (nss): New variable.
 2015-01-11 19:15:34 +08:00
Mark H Weaver b58b7dbb75 gnu: libtool: Skip nopic test on ARM and MIPS systems. 
* gnu/packages/patches/libtool-skip-tests.patch: Skip nopic test on ARM and
  MIPS systems.
 2015-01-07 18:00:49 -05:00
Mark H Weaver f7d2b496b9 gnu: patchelf: On ARM, apply experimental patch to get it working. 
* gnu/packages/patches/patchelf-rework-for-arm.patch: New file.
* gnu-system.am: Add it.
* gnu/packages/elf.scm: Apply patch when the target is ARM.
 2015-01-07 12:38:11 -05:00
Mark H Weaver 24aaf2f257 gnu: gmp: Apply fixes for armhf. 
* gnu/packages/patches/gmp-arm-asm-nothumb.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/multiprecision.scm (gmp): Add patch.  Include --build triplet
  in configure args when building natively.
* gnu/packages/commencement.scm (gcc-final): Use bootstrap guile to
  build gmp-source.
 2015-01-07 12:34:19 -05:00
Ludovic Courtès c154e1ea81 gnu: libtool: Update to 2.4.4. 
* gnu/packages/patches/libtool-2.4-skip-tests.patch: Rename to...
* gnu/packages/patches/libtool-skip-tests.patch: ... this.
* gnu/packages/patches/libtool-skip-tests-for-mips.patch: Remove.
* gnu-system.am (dist_patch_DATA): Adjust accordingly.
* gnu/packages/autotools.scm (libtool): Update to 2.4.4.
  (libtool-2.4.4): Remove.
 2015-01-07 16:48:50 +01:00
Mark H Weaver b515822de1 gnu: guile: Apply fixes for arm. 
* gnu/packages/patches/guile-arm-fixes.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/guile.scm (guile-2.0): Add patch.
 2015-01-06 19:47:09 -05:00
Mark H Weaver fd19df7252 gnu: patchelf: Update to 0.8. 
* gnu/packages/elf.scm (patchelf): Update to 0.8.
* gnu/packages/patches/patchelf-page-size.patch: Adapt to new version.
 2015-01-06 18:40:42 -05:00
Mark H Weaver 23800e4736 Merge branch 'master' into core-updates 2015-01-06 12:57:15 -05:00
Ludovic Courtès e13f715be0 gnu: libtool: Add 2.4.4. 
* gnu/packages/patches/libtool-2.4-skip-tests.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/autotools.scm (libtool-2.4.4): New variable.
 2015-01-03 23:35:43 +01:00
David Thompson 4b2fd119be gnu: minetest: Update to 0.4.11. 
* gnu/packages/patches/minetest-subgame-env-var.patch: Delete.
* gnu-system.am (dist_patch_DATA): Remove patch.
* gnu/packages/games.scm (minetest, minetest-data): Update to 0.4.11.
 2015-01-02 16:46:41 -05:00
Mark H Weaver bf0baaf7db gnu: glibc: MIPS: Avoid a dangling `vfork@GLIBC_2.0' reference. 
* gnu/packages/patches/glibc-mips-dangling-vfork-ref.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/base.scm (glibc): Add patch.
 2014-12-30 19:58:05 -05:00
Mark H Weaver 63d526e268 gnu: mutt: Add fix for CVE-2014-9116. 
* gnu/packages/patches/mutt-CVE-2014-9116.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/mail.scm (mutt): Add patch.
 2014-12-30 15:18:37 -05:00
Mark H Weaver e5da2f38c3 gnu: unzip: Add fixes for CVE-2014-{8139,8140,8141}. 
* gnu/packages/patches/unzip-CVE-2014-8139.patch,
  gnu/packages/patches/unzip-CVE-2014-8140.patch,
  gnu/packages/patches/unzip-CVE-2014-8141.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/zip.scm (unzip): Add patches.
 2014-12-30 14:48:13 -05:00
Mark H Weaver c7bdc7ece5 gnu: cpio: Add fixes for CVE-2014-9112. 
* gnu/packages/patches/cpio-CVE-2014-9112-pt1.patch,
  gnu/packages/patches/cpio-CVE-2014-9112-pt2.patch,
  gnu/packages/patches/cpio-CVE-2014-9112-pt3.patch,
  gnu/packages/patches/cpio-CVE-2014-9112-pt4.patch,
  gnu/packages/patches/cpio-CVE-2014-9112-pt5.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/cpio.scm (cpio): Add patches.  Add 'autoconf' to
  native-inputs.
 2014-12-30 14:48:13 -05:00
Mark H Weaver 26804e1351 gnu: glibc: Add fixes for CVE-2014-7817 and CVE-2012-3406. 
* gnu/packages/patches/glibc-CVE-2012-3406.patch,
  gnu/packages/patches/glibc-CVE-2014-7817.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/base.scm (glibc): Add patches.
 2014-12-30 13:57:40 -05:00
Mark H Weaver 8cbb67e045 Merge branch 'master' into core-updates 2014-12-30 12:23:32 -05:00
Mark H Weaver 7f9b77dc46 gnu: vtk: Fix build with mesa-10. 
* gnu/packages/patches/vtk-mesa-10.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/vtk.scm (vtk): Add patch.  Add glu to inputs.
 2014-12-27 11:18:29 -05:00
Mark H Weaver 6ac8aa3d75 gnu: m4: Remove already-applied patch. 
* gnu/packages/patches/m4-readlink-EINVAL.patch: Remove file.
* gnu-system.am (dist_patch_DATA): Remove it.
* gnu/packages/m4.scm (m4): Remove patch.
 2014-12-26 20:26:10 -05:00
Ludovic Courtès 0d12bc744e gnu: gcc-4.8: Update to 4.8.4. 
* gnu/packages/gcc.scm (gcc-4.8): Update to 4.8.4.  Remove patch.
* gnu/packages/patches/gcc-fix-pr61801.patch: Remove.
* gnu-system.am (dist_patch_DATA): Adjust accordingly.
 2014-12-27 00:17:43 +01:00
Ludovic Courtès 763a401ed1 Merge branch 'master' into core-updates 2014-12-26 23:31:04 +01:00