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2015-06-29gnu: Add deal.II....* gnu/packages/maths.scm (dealii, dealii-openmpi): New variables. * gnu/packages/patches/dealii-p4est-interface.patch: New patch. * gnu-system.am (dist_patch_DATA): Add it. Eric Bavier
2015-06-29gnu: petsc: Upgrade to 3.6.0....* gnu/packages/maths.scm (petsc): Upgrade to 3.6.0. * gnu/packages/patches/petsc-fix-threadcomm.patch: Delete patch. * gnu-system.am (dist_patch_DATA): Remove it. Eric Bavier
2015-06-29gnu: Add MUMPS....* gnu/packages/maths.scm (mumps, mumps-metis, mumps-openmpi) (mumps-metis-openmpi): New variables. * gnu/packages/patches/mumps-build-parallelism.patch: New patch. * gnu-system.am (dist_patch_DATA): Add it. Eric Bavier
2015-06-29gnu: Update scotch to 6.0.4....* gnu/packages/maths.scm (scotch): Update to 6.0.4. [arguments]: Add -fPIC to CFLAGS. * gnu/packages/patches/scotch-test-threading.patch: Adjust patch for a new set of test fixes. * gnu/packages/patches/pt-scotch-build-parallelism.patch: New patch. * gnu-system.am (dist_patch_DATA): Add it. Eric Bavier
2015-06-29gnu: hwloc: Upgrade to 1.10.1....* gnu/packages/patches/hwloc-gather-topology-lstopo.patch: New patch. * gnu/packages/mpi.scm (hwloc): Upgrade to 1.10.1. [source]: Use patch. [propagated-inputs]: Remove libpci. [inputs]: Add libpciaccess. * gnu-system.am (dist_patch_DATA): Add patch. Eric Bavier
2015-06-29gnu: r: Update to 3.2.1....* gnu/packages/statistics.scm (r): Update to 3.2.1. * gnu/packages/patches/r-fix-15899.patch: Remove file. * gnu-system.am (dist_patch_DATA): Remove it. Ricardo Wurmus
2015-06-29gnu: Add plink....* gnu/packages/bioinformatics.scm (plink): New variable. * gnu/packages/patches/plink-1.07-unclobber-i.patch: New file. Ricardo Wurmus
2015-06-21Merge branch 'master' into core-updatesMark H Weaver
2015-06-20gnu: 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. Mark H Weaver
2015-06-19gnu: 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. Mark H Weaver
2015-06-19gnu: 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. Ludovic Courtès
2015-06-19gnu: 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. David Thompson
2015-06-17gnu: 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. Mark H Weaver
2015-06-16gnu: 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. Mark H Weaver
2015-06-16Merge branch 'master' into core-updatesMark H Weaver
2015-06-16gnu: 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. Mark H Weaver
2015-06-16gnu: 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. Ludovic Courtès
2015-06-15gnu: 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. Ludovic Courtès
2015-06-14Merge branch 'master' into core-updates...Conflicts: gnu/packages/commencement.scm gnu/packages/xml.scm Mark H Weaver
2015-06-13gnu: 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. Mark H Weaver
2015-06-13gnu: 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. Mark H Weaver
2015-06-13gnu: 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. Eric Bavier
2015-06-12gnu: 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. Manolis Ragkousis
2015-06-10Merge branch 'master' into core-updatesMark H Weaver
2015-06-10gnu: 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. Mark H Weaver
2015-06-09gnu: make-bootstrap: Adjust gawk patch to 4.1.3....* gnu/packages/patches/gawk-shell.patch: Update for gawk 4.1.3. Ludovic Courtès
2015-06-09gnu: 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. Manolis Ragkousis
2015-06-08gnu: 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. Manolis Ragkousis
2015-06-06gnu: 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. Mark H Weaver
2015-06-04gnu: 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. Ludovic Courtès
2015-06-04gnu: 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. Ludovic Courtès
2015-05-29gnu: 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> 宋文武
2015-05-26gnu: 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. Mark H Weaver
2015-05-23gnu: 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. Manolis Ragkousis
2015-05-22gnu: 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. Mark H Weaver
2015-05-22gnu: Add rsem....* gnu/packages/bioinformatics.scm (rsem): New variable. * gnu/packages/patches/rsem-makefile.patch: New file. Ricardo Wurmus
2015-05-22gnu: 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. Mark H Weaver
2015-05-21gnu: 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. Ricardo Wurmus
2015-05-20gnu: 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'. Mark H Weaver
2015-05-14gnu: 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. Mark H Weaver
2015-05-13gnu: 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. Mark H Weaver
2015-05-12gnu: 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. Ludovic Courtès
2015-05-11gnu: 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. Mark H Weaver
2015-05-10gnu: 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. Alex Kost
2015-05-10Remove 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. Cyril Roelandt
2015-05-09gnu: 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. Ludovic Courtès
2015-05-08gnu: 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. Mark H Weaver
2015-05-07gnu: 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. Mark H Weaver
2015-05-07gnu: 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. Ricardo Wurmus
2015-05-07gnu: 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. Mark H Weaver
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