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2018-10-10gnu: clisp: Update to 2.49.92.Efraim Flashner
* gnu/packages/lisp.scm (clisp): Update to 2.49.92. [source]: Switch to git-fetch. Remove unneeded patch. [arguments]: Remove '--enable-portability' flag, add CFLAGS for armhf-linux. Update list of files needing substitutions in custom 'patch-sh-and-pwd phase. [home-page]: Update to new home-page. * gnu/packages/patches/clisp-glibc-2.26.patch: Remove file. & gnu/local.mk (dist_patch_DATA): Remove it.
2018-10-09gnu: zstd: Update to 1.3.6.Tobias Geerinckx-Rice
* gnu/packages/compression.scm (zstd): Update to 1.3.6. [source]: Remove merged patches. * gnu/packages/patches/zstd-fix-stdin-list-test.patch, gnu/packages/patches/zstd-fix-stdin-list-without-tty.patch: Delete files. * gnu/local.mk (dist_patch_DATA): Remove them.
2018-10-07gnu: crawl, crawl-tiles: Update to 0.22.1.Kei Kebreau
* gnu/packages/games.scm (crawl, crawl-tiles): Update to 0.22.1. * gnu/packages/patches/crawl-upgrade-saves.patch: Update accordingly.
2018-10-07gnu: borg: The backup client cannot override the server-side storage quota.Leo Famulari
* gnu/packages/patches/borg-respect-storage-quota.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/backup.scm (borg)[source]: Use it.
2018-10-07gnu: mes: Update to 0.18.Jan Nieuwenhuizen
* gnu/packages/patches/mes-nyacc-0.86.0.patch: Removef file. * gnu/local.mk (dist_patch_DATA): Remove entry. * gnu/packages/mes.scm (mes): Update to 0.18.
2018-10-05gnu: gnucash: Update to 3.3.Kei Kebreau
* gnu/packages/patches/gnucash-disable-failing-tests.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. * gnu/packages/gnucash.scm (gnucash): Update to 3.3. [source]: Add patch. [arguments]: Add 'set-env-vars', 'glib-or-gtk-compile-schemas', and 'glib-or-gtk-wrap' phases.
2018-10-05gnu: Add bastet.Tobias Geerinckx-Rice
* gnu/packages/games.scm (bastet): New public variable. * gnu/packages/patches/bastet-change-source-of-unordered_set.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it.
2018-10-03quilt: Remove test workarounds.Eric Bavier
* gnu/packages/patches/quilt-compat-getopt-fix-second-separator.patch, gnu/packages/patches/quilt-compat-getopt-fix-option-with-nondigit-param.patch: New files. * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/patchutils.scm (quilt)[source]: Use them. [arguments]: Remove workarounds in 'patch-tests' phase.
2018-10-02quilt: Upgrade to 0.65.Eric Bavier
* gnu/packages/patches/quilt-test-fix-regex.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/patchutils.scm (quilt)[version]: Upgrade to 0.65. [source]: Use patch. [arguments]: Adjust 'patch-tests' phase for new tests. Re-enable "mail" test.
2018-10-01gnu: ghc-haddock-library: Update to 1.5.0.1.Timothy Sample
* gnu/packages/patches/ghc-haddock-library-unbundle.patch: New file. * gnu/packages/haskell.scm (ghc-haddock-library): Update to 1.5.0.1. [source]: Add the patch; add a snippet to remove the bundled library. [arguments]: Add a phase to relax test suite dependency constraints and another to add a missing directory required for tests. [native-inputs]: Add ghc-base-compat, ghc-optparse-applicative, and ghc-tree-diff.
2018-09-25gnu: icecat: Unbundle libevent, libogg, and libvorbis.Mark H Weaver
* gnu/packages/patches/icecat-use-system-media-libs.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/patches/icecat-avoid-bundled-libraries.patch: Add another hunk to enable removal of libevent. * gnu/packages/gnuzilla.scm (icecat)[source]: Add patch. In the snippet, add libevent, libogg, libvorbis, and libtremor to the list of bundled libraries to remove. Add a comment regarding theora. Remove comments regarding unbundling cairo, which is no longer supported. [inputs]: Add libevent, libogg, and libvorbis. [arguments]: Add --with-system-{libevent,ogg,vorbis} to configure flags. Add custom bootstrap phase. Add comments.
2018-09-25gnu: icecat: Unbundle graphite2 and harfbuzz.Mark H Weaver
* gnu/packages/patches/icecat-use-system-graphite2+harfbuzz.patch: New file. * gnu/packages/patches/icecat-use-system-graphite2.patch, gnu/packages/patches/icecat-use-system-harfbuzz.patch: Delete files. * gnu/local.mk (dist_patch_DATA): Update accordingly. * gnu/packages/gnuzilla.scm (icecat)[source]: Add new patch. Delete bundled graphite2 and harfbuzz in snippet. [inputs]: Add graphite2 and harfbuzz. [arguments]: Add --with-system-{graphite2,harfbuzz} to configure flags.
2018-09-22gnu: icecat: Add fixes from upstream mozilla-esr60 [security fixes].Mark H Weaver
Includes fixes for CVE-2018-12383 and CVE-2018-12385. * gnu/packages/patches/icecat-CVE-2018-12383.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/patches/icecat-avoid-bundled-libraries.patch: Adapt to apply cleanly to IceCat 60. * gnu/packages/gnuzilla.scm (mozilla-patch): Update to fetch from mozilla-esr60. (icecat): Add selected changesets from upstream mozilla-esr60.
2018-09-22gnu: hmmer: Update to 3.2.1.Ben Woodcroft
* gnu/packages/bioinformatics.scm (hmmer): Update to 3.2.1. [origin]: Remove patch. [license]: Change to BSD-3. [supported-systems]: New field. * gnu/packages/patches/hmmer-remove-cpu-specificity.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2018-09-21gnu: icecat: Update to 60.2.0-gnu1 (pre-release).Mark H Weaver
* gnu/packages/gnuzilla.scm (icecat): Update to 60.2.0-gnu1. [source]: Download pre-release from alpha.gnu.org. Remove obsolete patches. Comment out the code to delete the bundled copies of libevent, cairo, harfbuzz, and graphite2. [inputs]: Use the latest ffmpeg. Comment out libevent, cairo, harfbuzz, and graphite2. [native-inputs]: Add rust and cargo. [arguments]: Remove --enable-gio and --disable-gnomeui. Add --disable-stylo. Comment out --with-system-{libevent,harfbuzz,graphite2}, --enable-system-cairo. Import %cargo-build-system-modules. Add 'patch-cargo-checksums' phase. * gnu/packages/patches/icecat-CVE-2018-5157-and-CVE-2018-5158.patch, gnu/packages/patches/icecat-bug-1413868-pt1.patch: Delete files. * gnu/local.mk (dist_patch_DATA): Remove them.
2018-09-21gnu: libvpx: Add upstream security fix.Mark H Weaver
* gnu/packages/patches/libvpx-use-after-free-in-postproc.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/video.scm (libvpx)[source]: Add patch.
2018-09-20gnu: rsem: Update to 1.3.1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (rsem): Update to 1.3.1. [source]: Fetch from git; remove patch; delete bundled samtools. [arguments]: Pass make flags; adjust phases. [inputs]: Remove ncurses and samtools-0.1; add htslib-1.3. * gnu/packages/patches/rsem-makefile.patch: Remove patch. * gnu/local.mk (dist_patch_DATA): Remove it.
2018-09-19gnu: Reinstate xf86-video-ast.Marius Bakke
* gnu/packages/patches/xf86-video-ast-remove-mibstore.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. * gnu/packages/xorg.scm (xf86-video-ast): New public variable.
2018-09-14gnu: OpenSSL 1.1: Update to 1.1.1.Leo Famulari
* gnu/packages/tls.scm (openssl-next): Update to 1.1.1. [arguments]: Patch a `/usr/bin/env` invocation in the 'config' script. Adjust the documentation output. * gnu/packages/patches/openssl-1.1.0-c-rehash-in.patch: Rename and ... * gnu/packages/patches/openssl-1.1-c-rehash-in.patch: ... adjust patch. * gnu/local.mk (dist_patch_DATA): Adjust accordingly.
2018-09-13gnu: rust: Accept more detailed gdb responses.Danny Milosavljevic
* gnu/packages/patches/rust-1.25-accept-more-detailed-gdb-lines.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/rust.scm (rust-1.25): Use it. (rust-1.26): Use it. (rust): Use it.
2018-09-10gnu: python-genshi: Update to 0.7.1.Tobias Geerinckx-Rice
* gnu/packages/python-web.scm (python-genshi): Update to 0.7.1. [source]: Use GIT-FETCH and GIT-FILE-NAME. Remove patches. * gnu/packages/patches/python-genshi-add-support-for-python-3.4-AST.patch, gnu/packages/patches/python-genshi-buildable-on-python-2.7.patch, gnu/packages/patches/python-genshi-disable-speedups-on-python-3.3.patch, gnu/packages/patches/python-genshi-fix-tests-on-python-3.5.patch, gnu/packages/patches/python-genshi-isstring-helper.patch, gnu/packages/patches/python-genshi-stripping-of-unsafe-script-tags.patch: Delete files. * gnu/local.mk (dist_patch_DATA): Remove them.
2018-09-10gnu: ldc: Update to 1.10.0.Pjotr Prins
* gnu/packages/ldc.scm (ldc): Update to 1.10.0. [native-inputs]: Switch to LLVM and CLANG. (ldc-bootstrap)[synopsis, description]: Tweak. * gnu/packages/patches/ldc-disable-phobos-tests.patch: New file. * gnu/packages/patches/ldc-1.7.0-disable-phobos-tests.patch: Remove. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-09gnu: libgd: Fix CVE-2018-{5711,1000222}.Leo Famulari
* gnu/packages/patches/gd-CVE-2018-1000222.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/gd.scm (gd/fixed): New variable. * gnu/packages/php.scm (gd-for-php)[source]: Use 'gd-CVE-2018-1000222.patch'.
2018-09-09gnu: ghostscript: Update replacement to 9.24 [security fixes].Marius Bakke
The following CVEs are fixed with this release: CVE-2018-15908, CVE-2018-15909, CVE-2018-15910, CVE-2018-15911, CVE-2018-16509, CVE-2018-16510, CVE-2018-16511, CVE-2018-16513, CVE-2018-16539, CVE-2018-16540, CVE-2018-16541, CVE-2018-16542, CVE-2018-16543. * gnu/packages/patches/ghostscript-CVE-2018-10194.patch: Delete file. * gnu/packages/patches/ghostscript-CVE-2018-16509.patch, gnu/packages/patches/ghostscript-bug-699708.patch: New files. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/ghostscript.scm (ghostscript/fixed): Update to 9.24. [source](patches): Remove 'ghostscript-CVE-2018-10194.patch' and 'ghostscript-runpath.patch'. Add 'ghostscript-CVE-2018-16509.patch' and 'ghostscript-bug-699708.patch'. [arguments]: Add LDFLAGS to #:configure-flags, and a phase to create output directory.
2018-09-08gnu: mes: Update to 0.17.1.Jan Nieuwenhuizen
* gnu/packages/patches/mes-nyacc-0.86.0.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/mes.scm (mes): Update to 0.17.1, depend on latest Nyacc 0.86.0. (nyacc-for-mes): Remove.
2018-09-08gnu: nyacc: Update to 0.86.0.Jan Nieuwenhuizen
* gnu/packages/patches/nyacc-binary-literals.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/mes.scm (nyacc): Update to 0.86.0, add patch.
2018-09-03gnu: openexr: Update to 2.3.0.Marius Bakke
* gnu/packages/graphics.scm (openexr): Update to 2.3.0. [source](uri): Change to new download location. [source](snippet): Remove workaround. [source](patches): Remove. * gnu/packages/patches/openexr-missing-samples.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2018-09-02gnu: haskell-mode: Fix test failure.Alex Vong
Fixes <https://bugs.gnu.org/31726>. Thanks to Jack Hill <jackhill@jackhill.us> for exploring different solutions at <https://debbugs.gnu.org/cgi/bugreport.cgi?bug=31726>. * gnu/packages/patches/haskell-mode-unused-variables.patch, gnu/packages/patches/haskell-mode-make-check.patch: New files. * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/emacs.scm (haskell-mode)[source]: Use them. [arguments]: Adjust 'pre-build' phase to embed file name. Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2018-09-02gnu: rust: Bootstrap (only) Rust 1.19.0 by mrustc.Danny Milosavljevic
* gnu/packages/patches/rust-1.19-mrustc.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/rust.scm (rust-1.19)[source]: Add patch "rust-1.19-mrustc.patch". [arguments]<#:modules>: New field. <#:phases>[patch-cargo-tomls]: New phase. <#:phases>[build]: Modify. <#:phases>[install]: Modify. [native-inputs]: Replace rust-bootstrap by mrustc. (rust-1.23)[native-inputs]: New field. [arguments]<#:phases>: Delete phase "patch-cargo-tomls".
2018-08-30netsurf: Upgrade to 3.8.Eric Bavier
* gnu/packages/patches/netsurf-message-timestamp.patch: New patch. * gnu/packages/patches/netsurf-system-utf8proc.patch: Adjust to new source. * gnu/packages/web.scm (netsurf): Upgrade to 3.8. [source]: Add the new patch.
2018-08-29Revert "gnu: snappy: Optimise."Marius Bakke
This causes too many rebuilds for the master branch. This reverts commit f96ed06805db934ff735e80596f1373dc1c2b5a8.
2018-08-28gnu: snappy: Optimise.Tobias Geerinckx-Rice
* gnu/packages/compression.scm (snappy)[source]: Build with ‘-O2’. * gnu/package/patches/snappy-add-O2-flag-in-CmakeLists.txt.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it.
2018-08-28gnu: dropbear: Fix CVE-2018-15599.Leo Famulari
* gnu/packages/patches/dropbear-CVE-2018-15599.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/ssh.scm (dropbear)[source]: Use it.
2018-08-28gnu: GRUB: Check for errors from efibootmgr.Marius Bakke
* gnu/packages/patches/grub-check-error-efibootmgr.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. * gnu/packages/bootloaders.scm (grub)[source](patches): New field.
2018-08-27gnu: python-pygit2: Update to 0.26.4.Leo Famulari
* gnu/packages/python.scm (python-pygit2, python2-pygit2): Update to 0.26.4. [source]: Remove 'python-pygit2-disable-network-tests.patch'. * gnu/packages/patches/python-pygit2-disable-network-tests.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2018-08-25gnu: Add avogadro.Kei Kebreau
* gnu/packages/chemistry.scm (avogadro): New variable. * gnu/packages/patches/avogadro-boost148.patch, gnu/packages/patches/avogadro-eigen3-update.patch, gnu/packages/patches/avogadro-python-eigen-lib.patch: New files. * gnu/local.mk (dist_patch_DATA): Add them.
2018-08-24gnu: OpenSSH: Update to 7.8p1.Leo Famulari
* gnu/packages/ssh.scm (openssh): Update to 7.8p1. [source]: Remove 'openssh-CVE-2018-15473.patch'. * gnu/packages/patches/openssh-CVE-2018-15473.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2018-08-23gnu: byobu: Update to 5.127.Tobias Geerinckx-Rice
* gnu/packages/screen.scm (byobu): Update to 5.127. * gnu/packages/patches/byobu-writable-status.patch: Adjust context accordingly.
2018-08-22gnu: perl-dbd-mysql: Update to 4.046.Leo Famulari
* gnu/packages/databases.scm (perl-dbd-mysql): Update to 4.046. [source]: Update URL. Remove 'perl-dbd-mysql-CVE-2017-10788.patch'. * gnu/packages/patches/perl-dbd-mysql-CVE-2017-10788.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2018-08-22gnu: soundtouch: Fix CVE-2018-{1000223,14044,14045}.Leo Famulari
* gnu/packages/patches/soundtouch-CVE-2018-14044-14045.patch, gnu/packages/patches/soundtouch-CVE-2018-1000223.patch: New files. * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/audio.scm (soundtouch)[source]: Use them.
2018-08-21gnu: openssh: Don't allow remote username enumeration [fixes CVE-2018-15473].Leo Famulari
* gnu/packages/patches/openssh-CVE-2018-15473.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/ssh.scm (openssh)[source]: Use it.
2018-08-19gnu: gcc@4.8: Fix libsanitizer build issue.Ludovic Courtès
Fixes <https://bugs.gnu.org/32397>. Reported by fis trivial <ybbs.daans@hotmail.com>. * gnu/packages/patches/gcc-4.8-libsanitizer-fix.patch: New file. * gnu/packages/gcc.scm (gcc-4.8)[source]: Use it. * gnu/local.mk (dist_patch_DATA): Add it.
2018-08-19Merge branch 'staging'Marius Bakke
2018-08-18gnu: eigen: Update to 3.3.5.Tobias Geerinckx-Rice
* gnu/packages/algebra.scm (eigen): Update to 3.3.5. [source]: Remove upstreamed ARM patch and obsolete substitutions. * gnu/packages/patches/eigen-arm-neon-fixes.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2018-08-17gnu: octave: Update to 4.4.1.Kei Kebreau
* gnu/packages/maths.scm (octave): Update to 4.4.1. (qtoctave)[source]: Remove obsolete patch. * gnu/packages/patches/qtoctave-qt-5.11-fix.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2018-08-17gnu: lxc: Update to 3.0.2.Tobias Geerinckx-Rice
* gnu/packages/virtualization.scm (lxc): Update to 3.0.2. [source]: Remove patch. * gnu/packages/patches/lxc-CVE-2018-6556.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2018-08-16gnu: racket: Update to 7.0.Konrad Hinsen
* gnu/packages/scheme.scm (racket): Update to 7.0. [inputs]: Add libedit. [arguments]: Update the list of FFI library references to patch. [source]: Remove 'racket-fix-xform-issue.patch'. * gnu/packages/patches/racket-store-checksum-override.patch: Adjust. * gnu/packages/patches/racket-fix-xform-issue.patch: Delete file. * gnu/local.mk: Adjust accordingly. Signed-off-by: Leo Famulari <leo@famulari.name>
2018-08-16gnu: btrfs-progs: Update to 4.17.1.Tobias Geerinckx-Rice
* gnu/packages/linux.scm (btrfs-progs): Update to 4.17.1. [source]: Remove patch. [native-inputs]: Add python. * gnu/packages/patches/btrfs-progs-e-value-block.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2018-08-16gnu: e2fsprogs: Update to 1.44.3.Tobias Geerinckx-Rice
* gnu/packages/linux.scm (e2fsprogs): Update to 1.44.3. [source]: Remove glibc-2.27 patch. (extundelete)[source]: Apply e2fsprogs-1.44 patch. * gnu/packages/patches/e2fsprogs-glibc-2.27.patch: Delete file... * gnu/local.mk (dist_patch_DATA): ...remove it, and add... * gnu/packages/patches/extundelete-e2fsprogs-1.44.patch: ...this new file.
2018-08-16Merge branch 'master' into stagingMarius Bakke
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