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2015-06-12gnu: Add OrfM....* gnu/packages/bioinformatics.scm (orfm): New variable. Signed-off-by: Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de> Ben Woodcroft
2015-06-12gnu: icedtea7: Bootstrap with GCJ....* gnu/packages/java.scm (icedtea7): Bootstrap with GCJ rather than compile with IcedTea6. Ricardo Wurmus
2015-06-12gnu: Add Couger....* gnu/packages/bioinformatics.scm (couger): New variable. Ricardo Wurmus
2015-06-12gnu: Add randomjungle....* gnu/packages/machine-learning.scm (randomjungle): New variable. Ricardo Wurmus
2015-06-12gnu: Add python-libsvm....* gnu/packages/machine-learning.scm (python-libsvm): New variable. Ricardo Wurmus
2015-06-12gnu: Add libsvm....* gnu/packages/machine-learning.scm: New file. * gnu-system.am (GNU_SYSTEM_MODULES): Add it. Ricardo Wurmus
2015-06-12gnu: ngs-sdk: Update to version 1.1.1....* gnu/packages/bioinformatics.scm (ngs-sdk): Update to version 1.1.1. Ricardo Wurmus
2015-06-11gnu: ghc: Patch runtime references to /bin/sh....* gnu/packages/haskell.scm (ghc)[arguments]: Rename 'unpack-and-fix-testsuite' phase to 'unpack-testsuite-and-fix-bins'. Patch source files that reference /bin/sh. Eric Bavier
2015-06-12Revert "gnu: openssl: Update to 1.0.2b."...This reverts commit 4f467e33de0b64b1afd935d14ec6a4839e03bdfc. Mark H Weaver
2015-06-12gnu: openssl: Update to 1.0.2b....* gnu/packages/openssl.scm (openssl): Update to 1.0.2b. Mark H Weaver
2015-06-11gnu: guix: Update snapshot....* gnu/packages/package-management.scm (guix-devel): Update to a43b55f. [source]: Add 'file-name' field. [native-inputs]: Add HELP2MAN. Ludovic Courtès
2015-06-11packages: Make 'location' field innate....* guix/packages.scm (<package>)[location]: Add 'innate' property. * guix/build-system/gnu.scm (static-package): Remove 'loc' parameter and 'location' field. * gnu/packages/autotools.scm (autoconf-wrapper): Remove 'location' field. * gnu/packages/commencement.scm (gnu-make-boot0, diffutils-boot0, gcc-final): Likewise. * gnu/packages/cross-base.scm (cross): Likewise. * gnu/packages/emacs.scm (emacs-no-x, emacs-no-x-toolkit): Likewise. * gnu/packages/make-bootstrap.scm (tarball-package): Likewise. * gnu/packages/maths.scm (petsc-complex): Likewise. Ludovic Courtès
2015-06-11gnu: gnupg: Update to 2.1.5....* gnu/packages/gnupg.scm (gnupg): Update to 2.1.5. Mark H Weaver
2015-06-11gnu: Add librest....* gnu/packages/gnome.scm (librest): New variable. 宋文武
2015-06-11gnu: inetutils: Update to 1.9.4....* gnu/packages/admin.scm (inetutils): Update to 1.9.4. Mark H Weaver
2015-06-10Merge branch 'master' into core-updatesMark H Weaver
2015-06-10gnu: nettle: Update to 3.1.1....* gnu/packages/nettle.scm (nettle): Update to 3.1.1. Mark H Weaver
2015-06-10gnu: which: Update to 2.21....* gnu/packages/base.scm (which): Update to 2.21. Mark H Weaver
2015-06-10gnu: cross-base: Do not strip cross-gcc....Fixes a regression introduced in 9063ef0 whereby #:strip-binaries? would be left to #t, leading to an invalid cross-built libgcc.a (see <http://hydra.gnu.org/build/492479/nixlog/1/tail-reload>.) * gnu/packages/cross-base.scm (cross-gcc-arguments): Add #:strip-binaries? #f unconditionally. Replace 'install' phase to use "make install-strip". Ludovic Courtès
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
2015-06-10gnu: cups: Update to 2.0.3....* gnu/packages/cups.scm (cups): Update to 2.0.3. Mark H Weaver
2015-06-10gnu: linux-libre: Update to 4.0.5....* gnu/packages/linux.scm (linux-libre): Update to 4.0.5. Mark H Weaver
2015-06-10gnu: commencement: Remove "debug" output of GCC-FINAL....Fixes a regression introduced in 9063ef0. * gnu/packages/commencement.scm (gcc-final)[outputs]: New field. Ludovic Courtès
2015-06-09gnu: gcc: Build libbacktrace without -Werror....* gnu/packages/gcc.scm (gcc-4.7)[arguments] <pre-configure>: Remove -Werror from libbacktrace/configure. Ludovic Courtès
2015-06-09gnu: gcc: Add "debug" output, debugging symbols of libraries....* gnu/packages/gcc.scm (gcc-4.7)[install-target]: Remove. [outputs]: Add "debug". [arguments]: Remove #:strip-binaries?. Remove 'install' phase. Ludovic Courtès
2015-06-09gnu: gcc: Do not add -rpath=LIBDIR/lib64 to the "lib" spec....* gnu/packages/gcc.scm (gcc-4.7): Remove unneeded LIBDIR/lib64 from GNU_USER_TARGET_LIB_SPEC. Ludovic Courtès
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
2015-06-09gnu: mysql: Update to 5.6.25....* gnu/packages/databases.scm (mysql): Update to 5.6.25. [source]: Use 'version-major+minor'. [build-system]: Change to cmake-build-system. Adjust arguments accordingly. [inputs]: Add libaio. Remove procps. Move perl to 'native-inputs'. 宋文武
2015-06-08gnu: Add proof-general....* gnu/packages/ocaml.scm (proof-general): New variable. Mark H Weaver
2015-06-08gnu: commencement: Use our Binutils as soon as possible....* gnu/packages/commencement.scm (binutils-boot0)[arguments]: Add 'add-symlinks' phase. Mark H Weaver
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
2015-06-08gnu: youtube-dl: Update to 2015.06.04.1....* gnu/packages/video.scm (youtube-dl): Update to 2015.06.04.1. Mark H Weaver
2015-06-08gnu: evince: Update to 3.16.1, add more inputs....* gnu/packages/gnome.scm (evince): Update to 3.16.1. [inputs]: Add djvulibre, libtiff, gnome-desktop and libsecret. Co-authored-by: David Hashe <david.hashe@dhashe.com> 宋文武
2015-06-08gnu: geoclue: Update to 2.2.0....* gnu/packages/gnome.scm (geoclue): Update to 2.2.0. 宋文武
2015-06-07gnu: python-numpy: Build against OpenBLAS....* gnu/packages/python.scm (python-numpy)[inputs]: Use "openblas" instead of "atlas". * gnu/packages/python.scm (python-numpy)[arguments]: Configure build against OpenBLAS. Modified-By: Mark H Weaver <mhw@netris.org> Ricardo Wurmus
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
2015-06-06gnu: tor: Update to 0.2.6.8....* gnu/packages/tor.scm (tor): Update to 0.2.6.8. [native-inputs]: Add python-2. Mark H Weaver
2015-06-05gnu: Add magit-svn....* gnu/packages/emacs.scm (magit-svn): New variable. Ludovic Courtès
2015-06-05gnu: Add coq....* gnu/packages/ocaml.scm (coq): New variable. Mark H Weaver
2015-06-05gnu: Add hevea....* gnu/packages/ocaml.scm (hevea): New variable. Mark H Weaver
2015-06-05gnu: Add camlp5....* gnu/packages/ocaml.scm (camlp5): New variable. Mark H Weaver
2015-06-05gnu: ocaml: Update to 4.02.1....* gnu/packages/ocaml.scm (ocaml)[version]: Update to 4.02.1. [source]: Use 'version-major+minor'. Use .xz tarball. [home-page]: Update URI. [license]: gpl2 -> lgpl2.0. [inputs]: Add libx11, gcc:lib, and zlib. Remove perl. [native-inputs]: New field, with perl and pkg-config. [arguments]: In #:modules, remove (srfi srfi-1), add (web server). Use 'modify-phases'. Enable parallel build. Add 'patch-/bin/sh-references' and 'prepare-socket-test' phases. Rename 'check-after-install' phase to 'check'. Use 'with-directory-excursion' in 'check' phase. Remove unused keyword arguments from custom phases. Mark H Weaver
2015-06-05gnu: Add devhelp....* gnu/packages/gnome.scm (devhelp): New variable. 宋文武
2015-06-05gnu: guile-opengl: Patch dynamic-link call for 'libGLU' to glu....* gnu/packages/gl.scm (guile-opengl)[inputs]: Add glu. [arguments]: Patch dynamic-link call for 'libGLU' to glu instead of mesa in the 'patch-dynamic-link' phase. 宋文武
2015-06-04gnu: Add LibreOffice....* gnu/packages/libreoffice.scm (xmlsec-src-libreoffice, libreoffice): New variables. Co-authored-by: John Darrington <jmd@gnu.org> Andreas Enge
2015-06-04gnu: Switch to GCC 4.9 as the default cross-compiler....* gnu/packages/cross-base.scm: Replace all occurrences of "gcc-4.8" with "gcc-4.9". Ludovic Courtès
2015-06-04gnu: Switch to GCC 4.9 as the default compiler....* gnu/packages/commencement.scm: Replace all occurrences of "gcc-4.8" with "gcc-4.9". (gcc-boot0)[arguments]: Add --disable-libcilkrts --disable-libvtv. Ludovic Courtès
2015-06-04gnu: linux-libre-headers: Do not retain reference to the bootstrap tools....* gnu/packages/linux.scm (linux-libre-headers)[install-phase]: Remove ".install" files from the output. [arguments]: Add #:allowed-references. Ludovic Courtès
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