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* gnu: metabat: Update to 2.12.1.•••* gnu/packages/patches/metabat-remove-compilation-date.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. * gnu/packages/bioinformatics.scm (metabat): Update to 2.12.1. [source]: Remove it. Use url-fetch. Ben Woodcroft2017-09-011-1/+0
* gnu: python2-larch: Enable tests.•••* gnu/packages/patches/python2-larch-coverage-4.0a6-compatibility.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/python.scm (python2-larch)[source]: Use it. [arguments]: Move 'check' phase to before 'build' phase. Arun Isaac2017-09-011-0/+1
* gnu: graphicsmagick: Fix CVE-2017-{13775,13776,13777}.•••* gnu/packages/imagemagick.scm (graphicsmagick)[source]: Add patches. * gnu/packages/patches/graphicsmagick-CVE-2017-13775.patch, gnu/packages/patches/graphicsmagick-CVE-2017-13776+CVE-2017-13777.patch: New files. * gnu/local.mk (dist_patch_DATA): Register them. Efraim Flashner2017-09-011-0/+2
* gnu: libxml2: Fix CVE-2017-{0663,7375,7376,9047,9048,9049,9050}.•••* gnu/packages/patches/libxml2-CVE-2017-0663.patch, gnu/packages/patches/libxml2-CVE-2017-7375.patch, gnu/packages/patches/libxml2-CVE-2017-7376.patch, gnu/packages/patches/libxml2-CVE-2017-9047+CVE-2017-9048.patch, gnu/packages/patches/libxml2-CVE-2017-9049+CVE-2017-9050.patch: New files. * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/xml.scm (libxml2)[replacement]: New field. (libxml2/fixed): New variable. Signed-off-by: Marius Bakke <mbakke@fastmail.com> Alex Vong2017-08-311-0/+5
* gnu: ruby-2.2.7: Fix CVE-2017-{0899,0900,0901,0902}.•••* gnu/packages/patches/ruby-2.2.7-rubygems-2613-ruby22.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/ruby.scm (ruby-2.2.7)[source]: Use it. Ben Woodcroft2017-08-311-0/+1
* gnu: ruby-2.3.4: Fix CVE-2017-{0899,0900,0901,0902}.•••* gnu/packages/patches/ruby-2.3.4-rubygems-2613-ruby23.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/ruby.scm (ruby-2.3.4)[source]: Use it. Ben Woodcroft2017-08-311-0/+1
* gnu: ruby-2.4.1: Fix CVE-2017-{0899,0900,0901,0902}.•••* gnu/packages/patches/ruby-rubygems-2612-ruby24.patch, gnu/packages/patches/ruby-rubygems-2613-ruby24.patch: New files. * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/ruby.scm (ruby-2.4.1)[source]: Use them. Ben Woodcroft2017-08-311-0/+2
* gnu: metabat: Update to 2.11.3.•••* gnu/packages/bioinformatics.scm (metabat): Update to 2.11.3. [source]: Use git-fetch. Remove boost-related patch. * gnu/packages/patches/metabat-fix-boost-issue.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Ben Woodcroft2017-08-311-1/+0
* gnu: gd: Replace with 2.2.5.•••Fixes CVE-2017-6362 and CVE-2017-7890. * gnu/packages/gd.scm (gd)[replacement]: New field. (gd-2.2.5): New variable. * gnu/packages/php.scm (gd-for-php): Remove variable (php)[inputs]: Replace GD-FOR-PHP with GD-2.2.5. * gnu/packages/patches/gd-CVE-2017-7890.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Marius Bakke2017-08-311-1/+0
* gnu: qemu: Update to 2.10.0.•••* gnu/packages/patches/qemu-CVE-2017-10664.patch, gnu/packages/patches/qemu-CVE-2017-10806.patch, gnu/packages/patches/qemu-CVE-2017-10911.patch, gnu/packages/patches/qemu-CVE-2017-11334.patch, gnu/packages/patches/qemu-CVE-2017-11434.patch, gnu/packages/patches/qemu-CVE-2017-12809.patch: gnu/packages/patches/qemu-CVE-2017-7493.patch, gnu/packages/patches/qemu-CVE-2017-8112.patch, gnu/packages/patches/qemu-CVE-2017-8309.patch, gnu/packages/patches/qemu-CVE-2017-8379.patch, gnu/packages/patches/qemu-CVE-2017-8380.patch, gnu/packages/patches/qemu-CVE-2017-9524.patch: Delete files. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/virtualization.scm (qemu): Update to 2.10.0. [source](patches): Remove. Marius Bakke2017-08-301-12/+0
* gnu: multiqc: Update to 1.2.•••* gnu/packages/bioinformatics.scm (multiqc): Update to 1.2. [source]: Remove patches. [arguments]: Remove to enable tests. [propagated-inputs]: Add python-spectra, python-requests, python-markdown, python-lzstring. * gnu/packages/patches/multiqc-fix-git-subprocess-error.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Ricardo Wurmus2017-08-301-1/+0
* Update e-mail for Kei Kebreau.•••* .mailmap: Map kei@openmailbox.org to current address. * gnu/local.mk: Replace kei@openmailbox.org to current address. * gnu/packages/backup.scm: Likewise. * gnu/packages/calendar.scm: Likewise. * gnu/packages/check.scm: Likewise. * gnu/packages/compression.scm: Likewise. * gnu/packages/documentation.scm: Likewise. * gnu/packages/emacs.scm: Likewise. * gnu/packages/fltk.scm: Likewise. * gnu/packages/freedesktop.scm: Likewise. * gnu/packages/game-development.scm: Likewise. * gnu/packages/games.scm: Likewise. * gnu/packages/gnome.scm: Likewise. * gnu/packages/gnustep.scm: Likewise. * gnu/packages/gtk.scm: Likewise. * gnu/packages/hexedit.scm: Likewise. * gnu/packages/image.scm: Likewise. * gnu/packages/maths.scm: Likewise. * gnu/packages/music.scm: Likewise. * gnu/packages/xfce.scm: Likewise. * gnu/packages/python.scm: Likewise. * gnu/packages/tcl.scm: Likewise. * gnu/packages/textutils.scm: Likewise. * gnu/packages/video.scm: Likewise. * gnu/packages/w3m.scm: Likewise. * gnu/packages/web.scm: Likewise. * gnu/packages/web-browsers.scm: Likewise. * gnu/packages/patches/wmfire-update-for-new-gdk-versions.patch: Likewise. Kei Kebreau2017-08-291-1/+1
* gnu: libzip: Fix CVE-2017-12858.•••* gnu/packages/patches/libzip-CVE-2017-12858.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/compression.scm (libzip)[source]: Use it. Leo Famulari2017-08-271-0/+1
* gnu: wxwidgets: Update to 3.0.3.•••* gnu/packages/wxwidgets.scm (wxwidgets): Update to 3.0.3. [source]: Remove 'wxwidgets-fix-windowGTK.patch'. * gnu/packages/patches/wxwidgets-fix-windowGTK.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Leo Famulari2017-08-271-1/+0
* Merge branch 'core-updates'Marius Bakke2017-08-261-39/+19
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| * Merge branch 'master' into core-updatesMarius Bakke2017-08-211-3/+9
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| * \ Merge branch 'master' into core-updatesMark H Weaver2017-08-151-0/+10
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| * \ \ Merge branch 'master' into core-updatesMark H Weaver2017-08-111-2/+0
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| * \ \ \ Merge branch 'master' into core-updatesMark H Weaver2017-08-091-1/+1
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| * \ \ \ \ Merge branch 'master' into core-updatesMark H Weaver2017-08-071-1/+1
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| * | | | | | gnu: texlive: Update to 2017.•••* gnu/packages/tex.scm (texlive, texlive-texmf): Update to 2017. (texlive-texmf-src): Update to 20170524. Remove 'texlive-texmf-CVE-2016-10243.patch'. (texlive-bin, texlive-extra-src): Update to 20170524. * gnu/packages/patches/texlive-texmf-CVE-2016-10243.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Leo Famulari2017-08-071-1/+0
| * | | | | | Merge branch 'master' into core-updatesMark H Weaver2017-08-061-1/+6
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| * | | | | | | gnu: libtasn1: Add replacement to fix CVE-2017-10790.•••Based on commit 01a61d7040b1794f36547b107abce6e967d59f21 by Leo Famulari <leo@famulari.name>. * gnu/packages/patches/libtasn1-CVE-2017-10790.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/tls.scm (libtasn1)[replacement]: New field. (libtasn1/fixed): New variable. Mark H Weaver2017-08-061-1/+2
| * | | | | | | Merge branch 'master' into core-updatesMarius Bakke2017-08-011-5/+3
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| * \ \ \ \ \ \ \ Merge branch 'master' into core-updatesMarius Bakke2017-07-281-2/+3
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| * | | | | | | | | gnu: metabat: Fix boost-related compilation issue.•••Reported by Leo Famulari. * gnu/packages/patches/metabat-fix-boost-issue.patch: New file. * gnu/packages/bioinformatics.scm (metabat): Use it. * gnu/local.mk (dist_patch_DATA): Add it. Ben Woodcroft2017-07-231-0/+1
| * | | | | | | | | Merge branch 'master' into core-updatesLeo Famulari2017-07-231-6/+21
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| * | | | | | | | | | gnu: guile-static-stripped: Update to 2.2.•••* gnu/packages/make-bootstrap.scm (%guile-static): Replace GUILE-2.0 with GUILE-2.2. Use "guile-2.2-default-utf8.patch" instead of "guile-default-utf8.patch". * gnu/packages/patches/guile-2.2-default-utf8.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Ludovic Courtès2017-07-181-0/+1
| * | | | | | | | | | Merge branch 'master' into core-updatesLeo Famulari2017-07-101-2/+14
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| * | | | | | | | | | | gnu: ghostscript: Make "/CreationDate", "/ModDate" optional, depending on env...•••* gnu/packages/patches/ghostscript-no-header-creationdate.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/ghostscript.scm (ghostscript): Use it. Danny Milosavljevic2017-07-101-0/+1
| * | | | | | | | | | | gnu: ghostscript: Make XMP UUID headers optional, depending on environment va...•••* gnu/packages/patches/ghostscript-no-header-uuid.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/ghostscript.scm (ghostscript): Use it. Danny Milosavljevic2017-07-101-0/+1
| * | | | | | | | | | | gnu: ghostscript: Make "/ID" optional, depending on environment variable.•••* gnu/packages/patches/ghostscript-no-header-id.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it * gnu/packages/ghostscript.scm (ghostscript): Use it. Danny Milosavljevic2017-07-101-0/+1
| * | | | | | | | | | | gnu: groff: Remove timestamps.•••Fixes <https://bugs.gnu.org/27593>. * gnu/packages/patches/groff-source-date-epoch.patch: New file. * gnu/local.mk: Add it. * gnu/packages/groff.scm (groff)[source]: Add it. Danny Milosavljevic2017-07-101-0/+1
| * | | | | | | | | | | gnu: wget: Fix compilation with Perl 5.26; skip faulty tests.•••* gnu/packages/wget.scm (wget)[arguments]: New field. [source](patches): Add "wget-perl-5.26.patch". * gnu/packages/patches/wget-perl-5.26.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Ludovic Courtès2017-07-071-0/+1
| * | | | | | | | | | | gnu: shishi: Build with latest libgcrypt.•••* gnu/packages/patches/shishi-fix-libgcrypt-detection.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/kerberos.scm (shishi)[source]: Use it. [inputs]: Use libgcrypt instead of libgcrypt-1.5. [arguments]: Set 'ac_cv_libgcrypt=yes' in #:configure-flags. * gnu/packages/gnupg.scm (libgcrypt-1.5): Remove variable. Leo Famulari2017-06-301-0/+1
| * | | | | | | | | | | Merge branch 'master' into core-updatesLeo Famulari2017-06-291-1/+3
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| * | | | | | | | | | | | gnu: intltool: Fix a compatibility issue with Perl 5.26.0.•••* gnu/packages/patches/intltool-perl-compatibility.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/glib.scm (intltool)[source]: Use it. Leo Famulari2017-06-291-0/+1
| * | | | | | | | | | | | Merge branch 'master' into core-updatesMark H Weaver2017-06-261-16/+7
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| * \ \ \ \ \ \ \ \ \ \ \ \ Merge branch 'master' into core-updatesMark H Weaver2017-06-201-1/+1
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| * | | | | | | | | | | | | | gnu: expat: Eliminate graft.•••* gnu/packages/xml.scm (expat): Update to 2.2.1. [source]: Remove patch. [replacement]: Remove field. (expat-2.2.1): Remove variable. * gnu/packages/patches/expat-CVE-2016-0718-fix-regression.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Mark H Weaver2017-06-181-1/+0
| * | | | | | | | | | | | | | Merge branch 'master' into core-updatesMark H Weaver2017-06-181-4/+13
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| * | | | | | | | | | | | | | | gnu: libtiff: Fix several bugs related to improper codec usage [security fixes].•••This commit applies the patch to the libtiff package, not the grafting replacement. * gnu/packages/patches/libtiff-tiffgetfield-bugs.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/image.scm (libtiff)[source]: Use it. Leo Famulari2017-06-151-0/+1
| * | | | | | | | | | | | | | | gnu: perl-net-ssleay: Update to 1.81.•••* gnu/packages/tls.scm (perl-net-ssleay): Update to 1.81. [native-inputs]: Remove 'perl-net-ssleay-disable-ede-test.patch'. [arguments]: Remove 'apply-patch' phase. * gnu/packages/patches/perl-net-ssleay-disable-ede-test.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Leo Famulari2017-06-141-1/+0
| * | | | | | | | | | | | | | | gnu: fontconfig: Update to 2.12.3.•••* gnu/packages/fontutils.scm (fontconfig): Update to 2.12.3. [source]: Remove obsolete patches. [native-inputs]: Add GPERF. [arguments]<#:phases>: Remove obsolete 'fix-tests-for-freetype-2.7.1' phase. Add 'regenerate-fcobjshash'. * gnu/packages/patches/fontconfig-charwidth-symbol-conflict.patch, gnu/packages/patches/fontconfig-path-max.patch: Delete files. * gnu/local.mk (dist_patch_DATA): Remove them. Marius Bakke2017-06-111-2/+0
| * | | | | | | | | | | | | | | Merge branch 'master' into core-updates•••Conflicts: * gnu/packages/tls.scm (gnutls): Incorporated 3.5.13 graft (88e2511e217f2). Marius Bakke2017-06-111-0/+2
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| * | | | | | | | | | | | | | | | gnu: mesa: Update to 17.1.2.•••* gnu/packages/patches/mesa-skip-disk-cache-test.patch: Adjust. * gnu/packages/patches/mesa-fix-32bit-test-failures.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove deleted file. * gnu/packages/gl.scm (mesa): Update to 17.1.2. [source]: Remove obsolete patch. [inputs]: Add LIBELF. [native-inputs]: Add WHICH. [arguments]<#:configure-flags>: Adjust deprecated flag. Marius Bakke2017-06-101-1/+0
| * | | | | | | | | | | | | | | | Merge branch 'master' into core-updatesMarius Bakke2017-06-101-2/+2
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| * | | | | | | | | | | | | | | | | gnu: eudev: Update to 3.2.2.•••* gnu/packages/linux.scm (eudev): Update to 3.2.2. [source](patches): Remove "eudev-conflicting-declaration.patch". * gnu/packages/patches/eudev-conflicting-declaration.patch: Remove. * gnu/local.mk (dist_patch_DATA): Remove it. Ludovic Courtès2017-06-091-1/+0
| * | | | | | | | | | | | | | | | | gnu: gcc: Fix libsanitizer cross-compilation to powerpc-linux-gnu.•••* gnu/packages/patches/gcc-asan-powerpc-missing-include.patch: New file. * gnu/packages/gcc.scm (gcc-5)[source](patches): Add it. * gnu/local.mk (dist_patch_DATA): Add it. Ludovic Courtès2017-06-081-0/+1
| * | | | | | | | | | | | | | | | | Merge branch 'master' into core-updates•••This merge commit includes a fix for CVE-2017-6512 in Perl 5.26.0. Leo Famulari2017-06-071-2/+6
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