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Author SHA1 Message Date
Ricardo Wurmus cc6ed47737 gnu: Add plink. 
* gnu/packages/bioinformatics.scm (plink): New variable.
* gnu/packages/patches/plink-1.07-unclobber-i.patch: New file.
 2015-06-29 12:54:48 +02:00
Mark H Weaver bf76d98789 Merge branch 'master' into core-updates 2015-06-21 14:30:22 -04:00
Mark H Weaver 180a93c72a gnu: gsl: Fix poly test on i686. 
* gnu/packages/patches/gsl-poly-test-fix-pt1.patch,
  gnu/packages/patches/gsl-poly-test-fix-pt2.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/maths.scm (gsl)[source]: Add patches.
 2015-06-20 01:38:56 -04:00
Mark H Weaver 9a6953d28a gnu: mdadm: Add compilation fix for gcc-4.9. 
* gnu/packages/patches/mdadm-gcc-4.9-fix.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/linux.scm (mdadm): Add patch.
 2015-06-19 22:42:12 -04:00
Ludovic Courtès fd6ae1b983 gnu: clang: Allow 'clang' to link executables. 
* gnu/packages/patches/clang-libc-search-path.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/llvm.scm (clang-from-llvm)[source]: Use it.
  [inputs]: Add "gcc-lib".
  [arguments]. Add -DGCC_INSTALL_PREFIX and -DC_INCLUDE_DIRS to
  #:configure-flags.  Add #:phases argument.
 2015-06-19 17:23:48 +02:00
David Thompson 5fd77f3f43 gnu: Make 'mount' interface in static Guile consistent with Guix API. 
Rather than expecting a pointer, the version of 'mount' in
guile-static-stripped now takes a string for the 'options' argument, just like
the 'mount' procedure in (guix build syscalls).

* gnu/packages/patches/guile-linux-syscalls.patch (mount): Expect a string or
  #f for 'options' argument.
* gnu/build/file-systems.scm (mount-file-system): Use new 'mount' interface.
 2015-06-19 07:49:18 -04:00
Mark H Weaver 9ae1e92071 gnu: cpio: Fix symlink-bad-length test. 
* gnu/packages/patches/cpio-fix-symlink-bad-length-test.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/cpio.scm (cpio): Add patch.
 2015-06-17 23:19:02 -04:00
Mark H Weaver 8e28d22c91 gnu: libtiff: Add fixes for several CVEs. 
* gnu/packages/patches/libtiff-CVE-2012-4564.patch,
  gnu/packages/patches/libtiff-CVE-2013-1960.patch,
  gnu/packages/patches/libtiff-CVE-2013-1961.patch,
  gnu/packages/patches/libtiff-CVE-2013-4231.patch,
  gnu/packages/patches/libtiff-CVE-2013-4232.patch,
  gnu/packages/patches/libtiff-CVE-2013-4243.patch,
  gnu/packages/patches/libtiff-CVE-2013-4244.patch,
  gnu/packages/patches/libtiff-CVE-2014-8127-pt1.patch,
  gnu/packages/patches/libtiff-CVE-2014-8127-pt2.patch,
  gnu/packages/patches/libtiff-CVE-2014-8127-pt3.patch,
  gnu/packages/patches/libtiff-CVE-2014-8127-pt4.patch,
  gnu/packages/patches/libtiff-CVE-2014-8128-pt1.patch,
  gnu/packages/patches/libtiff-CVE-2014-8128-pt2.patch,
  gnu/packages/patches/libtiff-CVE-2014-8128-pt3.patch,
  gnu/packages/patches/libtiff-CVE-2014-8128-pt4.patch,
  gnu/packages/patches/libtiff-CVE-2014-8128-pt5.patch,
  gnu/packages/patches/libtiff-CVE-2014-8129.patch,
  gnu/packages/patches/libtiff-CVE-2014-9330.patch,
  gnu/packages/patches/libtiff-CVE-2014-9655.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/image.scm (libtiff)[source]: Add patches.
 2015-06-16 01:02:01 -04:00
Mark H Weaver 7d02724b7b Merge branch 'master' into core-updates 2015-06-16 01:01:54 -04:00
Mark H Weaver fef3cfaaab gnu: qemu: Add fixes for CVE-2015-{4037,4103,4104,4105,4106}. 
* gnu/packages/patches/qemu-CVE-2015-4037.patch,
  gnu/packages/patches/qemu-CVE-2015-4103.patch,
  gnu/packages/patches/qemu-CVE-2015-4104.patch,
  gnu/packages/patches/qemu-CVE-2015-4105.patch,
  gnu/packages/patches/qemu-CVE-2015-4106-pt1.patch,
  gnu/packages/patches/qemu-CVE-2015-4106-pt2.patch,
  gnu/packages/patches/qemu-CVE-2015-4106-pt3.patch,
  gnu/packages/patches/qemu-CVE-2015-4106-pt4.patch,
  gnu/packages/patches/qemu-CVE-2015-4106-pt5.patch,
  gnu/packages/patches/qemu-CVE-2015-4106-pt6.patch,
  gnu/packages/patches/qemu-CVE-2015-4106-pt7.patch,
  gnu/packages/patches/qemu-CVE-2015-4106-pt8.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/qemu.scm (qemu-headless)[source]: Add patches.
 2015-06-16 00:29:28 -04:00
Ludovic Courtès d3b4c1358c gnu: tar: Skip tests that rely on undefined unlinkat(2) behavior. 
Fixes <http://bugs.gnu.org/20597>.
Reported by Andrew Patterson <ajpatter@uwaterloo.ca>.

* gnu/packages/patches/tar-skip-unreliable-tests.patch: New file.
* gnu/packages/base.scm (tar)[source](patches): Add it.
* gnu-system.am (dist_patch_DATA): Add it.
 2015-06-16 00:27:27 +02:00
Ludovic Courtès 25cc3fe703 gnu: gettext: Fix non-deterministic msgunfmt behavior. 
Suggested by Alírio Eyng <alirioeyng@gmail.com>.

* gnu/packages/patches/gettext-msgunfmt.patch: New file.
* gnu/packages/gettext.scm (gnu-gettext)[source]: Use it.
* gnu-system.am (dist_patch_DATA): Add it.
 2015-06-15 23:34:01 +02:00
Mark H Weaver bcf2971f6e Merge branch 'master' into core-updates 
Conflicts:
	gnu/packages/commencement.scm
	gnu/packages/xml.scm
 2015-06-14 08:49:42 -04:00
Mark H Weaver 0ad8f76f7f gnu: perl-net-ssleay: Disable test that fails with openssl-1.0.2b. 
* gnu/packages/patches/perl-net-ssleay-disable-ede-test.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/openssl.scm (perl-net-ssleay): Add patch.
 2015-06-13 23:01:07 -04:00
Mark H Weaver 4c50e5ab3a gnu: python: Disable ssl test that fails with openssl-1.0.2b. 
* gnu/packages/patches/python-disable-ssl-test.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/python.scm (python): Add patch.
 2015-06-13 23:01:07 -04:00
Eric Bavier 0061079a19 gnu: Add hydra. 
* gnu/packages/ci.scm: New file.
* gnu/packages/patches/hydra-automake-1.15.patch,
  gnu/packages/patches/hydra-disable-darcs-test.patch: New files.
* gnu-system.am (GNU_SYSTEM_MODULES): Add file.
  (dist_patch_DATA): Add patches.
 2015-06-13 08:05:01 -05:00
Manolis Ragkousis 16cae799db gnu: patch: Set PATH_MAX for Hurd systems. 
* gnu/packages/patches/patch-hurd-path-max.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
 2015-06-12 15:46:25 +03:00
Mark H Weaver 1492801655 Merge branch 'master' into core-updates 2015-06-10 17:50:27 -04:00
Mark H Weaver 3dbb0e5f8b gnu: qemu: Add fix for CVE-2015-3209. 
* gnu/packages/patches/qemu-CVE-2015-3209.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/qemu.scm (qemu): Add patch.
 2015-06-10 15:42:16 -04:00
Ludovic Courtès e58652502b gnu: make-bootstrap: Adjust gawk patch to 4.1.3. 
* gnu/packages/patches/gawk-shell.patch: Update for gawk 4.1.3.
 2015-06-09 22:32:15 +02:00
Manolis Ragkousis 30347caae7 gnu: guile-static: Use Linux syscalls only on Linux-based systems. 
* gnu/packages/patches/guile-linux-syscalls.patch: Use Linux
  syscalls only on Linux-based systems.
 2015-06-09 22:48:10 +03:00
Manolis Ragkousis 56eba3d152 gnu: sed: Set PATH_MAX for Hurd systems. 
* gnu/packages/patches/sed-hurd-path-max.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
 2015-06-08 22:26:28 +03:00
Mark H Weaver 716e20a2bc gnu: icecat: Update to 31.7.0-gnu1. 
* gnu/packages/patches/icecat-CVE-2015-0797.patch,
  gnu/packages/patches/icecat-CVE-2015-2708-pt1.patch,
  gnu/packages/patches/icecat-CVE-2015-2708-pt2.patch,
  gnu/packages/patches/icecat-CVE-2015-2708-pt3.patch,
  gnu/packages/patches/icecat-CVE-2015-2708-pt4.patch,
  gnu/packages/patches/icecat-CVE-2015-2710-pt1.patch,
  gnu/packages/patches/icecat-CVE-2015-2710-pt2.patch,
  gnu/packages/patches/icecat-CVE-2015-2710-pt3.patch,
  gnu/packages/patches/icecat-CVE-2015-2713-pt1.patch,
  gnu/packages/patches/icecat-CVE-2015-2713-pt2.patch,
  gnu/packages/patches/icecat-CVE-2015-2716.patch: Remove files.
* gnu-system.am (dist_patch_DATA): Remove them.
* gnu/packages/gnuzilla.scm (icecat): Update to 31.7.0-gnu1.  Remove patches.
 2015-06-06 08:02:45 -04:00
Ludovic Courtès 67dfa1986d gnu: findutils: Use /var as the localstatedir, for 'updatedb'. 
* gnu/packages/patches/findutils-localstatedir.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/base.scm (findutils)[source]: Use it.
  [arguments]: Pass --localstatedir=/var.
 2015-06-04 12:49:43 +02:00
Ludovic Courtès 2068559ba0 gnu: gcc: Move patch upstream status in the patch itself. 
* gnu/packages/patches/gcc-arm-link-spec-fix.patch: Add bug and patch URLs.
* gnu/packages/gcc.scm (gcc-4.8): Remove them.
 2015-06-04 09:30:20 +02:00
宋文武 e7e8ea069e gnu: webkitgtk-2.4: Update to 2.8.9, build with gtk3. 
* gnu/packages/webkit.scm (webkitgtk-2.4): Update to 2.8.9, build with gtk3.
  Move flex and which to 'native-inputs'.  Remove #:configure-flags.
  (webkitgtk/gtk+-2): New variable.
* gnu/packages/gnucash.scm (gnucash): Use webkitgtk/gtk+-2.
* gnu/packages/patches/webkitgtk-2.4.8-gmutexlocker.patch: Remove file.
* gnu-system.am (dist_patch_DATA): Remove it.

Co-authored-by: Feng Shu <tumashu@163.com>
 2015-05-29 16:05:49 +08:00
Mark H Weaver 77af7b2407 gnu: maxima: Update to 5.36.1. 
* gnu/packages/patches/maxima-defsystem-mkdir.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/maths.scm (maxima): Update to 5.36.1.  Add patch.
 2015-05-26 10:23:38 -04:00
Manolis Ragkousis 94d915d0b0 gnu: base: Fix a bug that occurs in non-Linux systems. 
* gnu/packages/base.scm (tar): Apply patch.
* gnu/packages/patches/tar-d_ino_in_dirent-fix.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
 2015-05-23 22:24:25 +03:00
Mark H Weaver 936715c9f4 gnu: gnutls: Update to 3.4.1. 
* gnu/packages/patches/gnutls-fix-duplicate-manpages.patch: Remove file.
* gnu-system.am (dist_patch_DATA): Remove it.
* gnu/packages/gnutls.scm (gnutls): Update to 3.4.1.  Remove patch.
 2015-05-22 23:00:30 -04:00
Ricardo Wurmus 66e3eff1e3 gnu: Add rsem. 
* gnu/packages/bioinformatics.scm (rsem): New variable.
* gnu/packages/patches/rsem-makefile.patch: New file.
 2015-05-22 13:14:29 +02:00
Mark H Weaver 4de02f36ac gnu: fuse: Add fix for CVE-2015-3202. 
* gnu/packages/patches/fuse-CVE-2015-3202.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/linux.scm (fuse): Add patch.
 2015-05-22 00:10:43 -04:00
Ricardo Wurmus 9099e88182 gnu: r: Apply patch to fix linking against R. 
* gnu/packages/patches/r-fix-15899.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/statistics.scm (r)[source]: Use it.
 2015-05-21 11:54:46 +02:00
Mark H Weaver 3a6fb858ad gnu: bitlbee: Update to 3.4. 
* gnu/packages/patches/bitlbee-configure-doc-fix.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/messaging.scm (bitlbee): Update to 3.4.  Add patch.
  [inputs]: Remove 'zlib'.
 2015-05-20 16:07:09 -04:00
Mark H Weaver f6708fcdb2 gnu: qemu: Update to 2.3.0; add fix for CVE-2015-3456. 
* gnu/packages/patches/qemu-CVE-2015-3456.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/qemu.scm (qemu-headless): Update to 2.3.0.  Add patch.
 2015-05-14 19:36:19 -04:00
Mark H Weaver e1820d1443 gnu: icecat: Apply fixes for CVE-2015-{0797,2708,2710,2713,2716}. 
* gnu/packages/patches/icecat-CVE-2015-0797.patch,
  gnu/packages/patches/icecat-CVE-2015-2708-pt1.patch,
  gnu/packages/patches/icecat-CVE-2015-2708-pt2.patch,
  gnu/packages/patches/icecat-CVE-2015-2708-pt3.patch,
  gnu/packages/patches/icecat-CVE-2015-2708-pt4.patch,
  gnu/packages/patches/icecat-CVE-2015-2710-pt1.patch,
  gnu/packages/patches/icecat-CVE-2015-2710-pt2.patch,
  gnu/packages/patches/icecat-CVE-2015-2710-pt3.patch,
  gnu/packages/patches/icecat-CVE-2015-2713-pt1.patch,
  gnu/packages/patches/icecat-CVE-2015-2713-pt2.patch,
  gnu/packages/patches/icecat-CVE-2015-2716.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/gnuzilla.scm (icecat): Add patches.
 2015-05-13 01:32:28 -04:00
Ludovic Courtès 083b54b7c7 gnu: inetutils: Update to 1.9.3. 
* gnu/packages/patches/inetutils-syslogd.patch: Remove.
* gnu-system.am (dist_patch_DATA): Adjust accordingly.
* gnu/packages/admin.scm (inetutils): Bump to 1.9.3.
  [source]: Remove patch.
  [native-inputs]: Remove.
 2015-05-12 21:22:52 +02:00
Mark H Weaver d48c8e7b60 gnu: wpa-supplicant: Add security fixes. 
* gnu/packages/patches/wpa-supplicant-2015-2-fix.patch,
  gnu/packages/patches/wpa-supplicant-2015-3-fix.patch,
  gnu/packages/patches/wpa-supplicant-2015-4-fix-pt1.patch,
  gnu/packages/patches/wpa-supplicant-2015-4-fix-pt2.patch,
  gnu/packages/patches/wpa-supplicant-2015-4-fix-pt3.patch,
  gnu/packages/patches/wpa-supplicant-2015-4-fix-pt4.patch,
  gnu/packages/patches/wpa-supplicant-2015-4-fix-pt5.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/admin.scm (wpa-supplicant-light)[source]: Add patches.
 2015-05-11 12:51:47 -04:00
Alex Kost 6633f86b49 gnu: Add tvtime. 
* gnu/packages/tv.scm,
  gnu/packages/patches/tvtime-gcc41.patch,
  gnu/packages/patches/tvtime-pngoutput.patch,
  gnu/packages/patches/tvtime-videodev2.patch,
  gnu/packages/patches/tvtime-xmltv.patch: New files.
* gnu-system.am (GNU_SYSTEM_MODULES): Add package.
  (dist_patch_DATA): Add patches.
 2015-05-10 18:30:54 +03:00
Cyril Roelandt 8fda1b7970 Remove leftover patches. 
* gnu/packages/patches/guix-test-networking.patch: Delete it.
* gnu/packages/patches/libtool-skip-tests.patch: Delete it.
* gnu/packages/patches/python-sqlite-3.8.4-test-fix.patch: Delete it.
* gnu/packages/patches/udev-gir-libtool.patch: Delete it.
* gnu-system.am (dist_patch_DATA): Remove them as well.
 2015-05-10 02:10:07 +02:00
Ludovic Courtès 6f05630ba6 gnu: wicd: Add patch to fix template instantiation. 
* gnu/packages/patches/wicd-template-instantiation.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/wicd.scm (wicd)[source]: Use it.
 2015-05-09 23:53:36 +02:00
Mark H Weaver cbf71ea25e gnu: subversion: Add fix for sqlite-3.8.9. 
* gnu/packages/patches/subversion-sqlite-3.8.9-fix.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/version-control.scm (subversion): Add patch.
 2015-05-08 20:33:20 -04:00
Mark H Weaver aa2e989e1e gnu: linux-libre: Update to 4.0.2. 
* gnu/packages/patches/linux-libre-libreboot-fix.patch: Remove file.
* gnu-system.am (dist_patch_DATA): Remove it.
* gnu/packages/linux.scm (linux-libre): Update to 4.0.2.  Remove patch.
 2015-05-07 18:41:32 -04:00
Ricardo Wurmus 7b05ba9161 gnu: Add WebkitGTK 2.4.8. 
* gnu/packages/webkit.scm (webkitgtk-2.4): New variable.
* gnu/packages/patches/webkitgtk-2.4.8-gmutexlocker.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
 2015-05-07 20:17:42 +02:00
Mark H Weaver 88b6b125ba gnu: serf: Apply upstream fixes. 
* gnu/packages/patches/serf-comment-style-fix.patch,
  gnu/packages/patches/serf-deflate-buckets-test-fix.patch: New file.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/web.scm (serf): Add patches.  Remove 'remove-non-c89-comment'
  phase.
 2015-05-07 12:22:09 -04:00
Eric Bavier 76071c70fc gnu: hop: Remove use of patchelf. 
* gnu/packages/patches/hop-linker-flags.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/scheme.scm (source)[patches]: Use it.
  (arguments)[phases]: Remove patch-rpath phase.
  [modules, imported-modules]: Remove.
  (native-inputs): Remove field.
 2015-05-06 10:31:02 -05:00
Eric Bavier 401f9a8b15 gnu: fltk: Fix undefined symbol errors for shared libraries. 
* gnu/packages/patches/fltk-shared-lib-defines.patch: New patch.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/fltk.scm (source)[patches]: New field.
 2015-05-05 00:52:53 -05:00
Mark H Weaver 80e2072a75 gnu: curl: Update to 7.42.1. 
* gnu/packages/patches/curl-support-capath-on-gnutls-conf.patch,
  gnu/packages/patches/curl-support-capath-on-gnutls.patch: Remove files.
* gnu-system.am (dist_patch_DATA): Remove them.
* gnu/packages/curl.scm (curl): Update to 7.42.1.  Remove patches.
 2015-05-04 12:37:30 -04:00
Ludovic Courtès 167a05aabc gnu: gcc-5.1: Add specific libvtv patch. 
* gnu/packages/patches/gcc-5.0-libvtv-runpath.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/gcc.scm (gcc-5.1)[source]: Use it.
 2015-05-04 00:24:21 +02:00
Ludovic Courtès bf4af30bb2 Merge branch 'master' into core-updates 2015-05-01 15:03:30 +02:00
Taylan Ulrich Bayırlı/Kammer 9e63a388d9 gnu: qt: Add patch for i686 build problem. 
See <https://bugreports.qt.io/browse/QTBUG-45205>.

* gnu/packages/patches/qt5-conflicting-typedefs.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/qt.scm (qt): Add the patch.
 2015-05-01 01:05:50 +02:00