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2021-02-01Merge branch 'staging'Leo Famulari
2021-02-01gnu: vcflib: Fix generated pkg-config file.Efraim Flashner
* gnu/packages/bioinformatics.scm (vcflib)[arguments]: In custom generated pkg-config file, link with all needed libraries and fix linker library. * gnu/packages/patches/freebayes-devendor-deps.patch: Adjust accordingly.
2021-01-31gnu: Add c++-gsl.Raghav Gururajan
* gnu/packages/cpp.scm (c++-gsl): New variable. * gnu/packages/patches/c++-gsl-find-system-gtest.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Leo Prikler <leo.prikler@student.tugraz.at>
2021-01-31gnu: gst-plugins-good: Fix a test failure on 32-bit systems.Leo Famulari
* gnu/packages/patches/gst-plugins-good-fix-test.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/gstreamer.scm (gst-plugins-good)[source]: Use it.
2021-01-29gnu: Remove avogadro.Leo Famulari
This package fails to build and has been superseded by avogadro2. * gnu/packages/chemistry.scm (avogadro): Remove variable. * gnu/packages/patches/avogadro-boost148.patch, gnu/packages/patches/avogadro-eigen3-update.patch, gnu/packages/patches/avogadro-python-eigen-lib.patch: Delete files. * gnu/local.mk (dist_patch_DATA): Remove them.
2021-01-27gnu: pinentry-tty: Update to 1.1.1.Tobias Geerinckx-Rice
* gnu/packages/gnupg.scm (pinentry-tty): Update to 1.1.1. (pinentry-efl)[source]: Remove patch. * gnu/packages/patches/pinentry-efl.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2021-01-27gnu: VLC: Remove obsolete patch.Leo Famulari
* gnu/packages/patches/vlc-qt-5.15.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. * gnu/packages/video.scm (vlc)[source]: Remove patch.
2021-01-26gnu: icecat: Update to 78.7.0-guix0-preview1 [security fixes].Mark H Weaver
Includes fixes for CVE-2021-23953, CVE-2021-23954, CVE-2020-26976, CVE-2021-23960, and CVE-2021-23964. * gnu/packages/gnuzilla.scm (%icecat-version, %icecat-build-id): Update. (icecat-source): Update gnuzilla commit, base version, and hashes. * gnu/packages/patches/icecat-makeicecat.patch: Adapt to new version.
2021-01-25gnu: Mutt: Update to 2.0.5.Leo Famulari
* gnu/packages/patches/mutt-CVE-2021-3181.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. * gnu/packages/mail.scm (mutt): Update to 2.0.5. [source]: Remove obsolete patch.
2021-01-25Merge branch 'master' into stagingLeo Famulari
2021-01-20gnu: Mutt: Fix CVE-2021-3181.Leo Famulari
* gnu/packages/patches/mutt-CVE-2021-3181.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/mail.scm (mutt)[source]: Use it.
2021-01-20gnu: r-httpuv: Update to 1.5.5.Ricardo Wurmus
* gnu/packages/cran.scm (r-httpuv): Update to 1.5.5. [source]: Update patch name and remove unused modules. * gnu/packages/patches/r-httpuv-1.5.4-unvendor-libuv.patch: Rename this file... * gnu/packages/patches/r-httpuv-1.5.5-unvendor-libuv.patch: ...to this. * gnu/local.mk (dist_patch_DATA): Rename it.
2021-01-20gnu: idris: Update to 1.3.3.Eric Bavier
* gnu/packages/patches/idris-disable-test.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/idris.scm (idris): Update to 1.3.3. [source]: Use the patch. [native-inputs]: Add ghc-cheapskate. [arguments]: Adjust cheapskate version bounds. Make auxiliary test script executable.
2021-01-19gnu: freebayes: Don't include vcflib sources.Efraim Flashner
* gnu/packages/bioinformatics.scm (freebayes)[native-inputs]: Remove vcflib-source, intervaltree-source. Move vcflib ... [inputs]: ... to here. [arguments]: Adjust 'patch-source and 'unpack-submodule-sources for changes in vendored code. * gnu/packages/patches/freebayes-devendor-deps.patch: Update patch.
2021-01-18gnu: mesa: Skip another test.Leo Famulari
* gnu/packages/patches/mesa-skip-disk-cache-test.patch: Rename to ... * gnu/packages/patches/mesa-skip-tests.patch: ... new file. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/gl.scm (mesa)[source]: Adjust accordingly.
2021-01-17gnu: freebayes: Update to 1.3.3.Efraim Flashner
* gnu/packages/bioinformatics.scm (freebayes): Update to 1.3.3. [source]: Add patch. Add snippet to remove vendored library. [build-system]: Switch to meson-build-system. [inputs]: Remove bamtools. Add fastahack, smithwaterman, tabixpp. [native-inputs]: Remove procps, python-2, tabixpp source, smithwaterman source, multichoose source, fsom source, filevercmp source, fastahack source, bash-tap source. Add bash-tap, grep, pkg-config, simde, vcflib. [arguments]: Drop make-flags. Don't delete 'configure phase. Delete custom 'fix-tests, 'build-tabixpp-and-vcflib, 'fix-makefiles, 'install phases. Adjust 'unpack-submodule-sources phase to changed native-inputs. Add new 'patch-source phase.
2021-01-14gnu: vcflib: Update to 1.0.2.Efraim Flashner
* gnu/packages/bioinformatics.scm (vcflib): Update to 1.0.2. [source]: Download using git-fetch. Remove patch. Update snippet to use packaged libraries. [build-system]: Switch to cmake-build-system. [inputs]: Add bzip2. [native-inputs]: Add package-source of fsom. [arguments]: Delete custom 'set-flags, 'install phases. Don't delete 'configure phase. Adjust 'unpack-submodule-sources phase. * gnu/packages/patches/vcflib-use-shared-libraries.patch: Remove file. * gnu/local.mk (dist_patch_DATA): Remove it.
2021-01-14gnu: Add ipxe.Vincent Legoll
* gnu/packages/bootloaders.scm (ipxe): New variable. * gnu/packages/patches/ipxe-reproducible-geniso.patch: New file … * gnu/local.mk (dist_patch_DATA): … add it. Co-authored-by: Tobias Geerinckx-Rice <me@tobias.gr> Co-authored-by: Brice Waegeneire <brice@waegenei.re> Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2021-01-11gnu: podofo: Update to 0.9.7.Tobias Geerinckx-Rice
* gnu/packages/pdf.scm (podofo): Update to 0.9.7. [source]: Remove patch. * gnu/packages/patches/podofo-cmake-3.12.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2021-01-11gnu: guile: Fix tests on emulated architectures.Mathieu Othacehe
The stack overflow test limits the virtual memory size using setrlimit with RLIMIT_AS argument. This is ignored when using QEMU transparent emulation, causing the test to crash. * gnu/packages/patches/guile-2.2-skip-so-test.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. * gnu/packages/guile.scm (guile-3.0-latest): Add it.
2021-01-10gnu: tipp10: Build with qt-5.Efraim Flashner
* gnu/packages/education.scm (tipp10)[source]: Add new patches. [inputs]: Remove qt-4, sqlite. Add qtbase, qtmultimedia. * gnu/packages/patches/tipp10-disable-downloader.patch, gnu/packages/patches/tipp10-qt5.patch: New files. * gnu/local.mk (dist_patch_DATA): Register them.
2021-01-10Merge branch 'master' into stagingEfraim Flashner
2021-01-10gnu: pulseview: Fix qt-5.15 compatibility.Efraim Flashner
* gnu/packages/electronics.scm (pulseview)[source]: Add patch. * gnu/packages/patches/pulseview-qt515-compat.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it.
2021-01-09gnu: emacs-scheme-complete: Update to 0.9.9.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-scheme-complete): Update to 0.9.9. * gnu/packages/patches/emacs-scheme-complete-scheme-r5rs-info.patch: Remove file. * gnu/local.mk: Update file.
2021-01-08gnu: icecat: Update to 78.6.1-guix0-preview1 [fixes CVE-2020-16044].Mark H Weaver
* gnu/packages/gnuzilla.scm (%icecat-version, %icecat-build-id): Update. (icecat-source): Update gnuzilla commit, base version, and hashes. * gnu/packages/patches/icecat-makeicecat.patch: Adapt to new version.
2021-01-06gnu: gpsbabel: Enable tests.Efraim Flashner
* gnu/packages/patches/gps.scm (gpsbabel)[source]: Add patch. [arguments]: Enable tests. * gnu/packages/patches/gpsbabel-fix-i686-test.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it.
2021-01-06gnu: gpsbabel: Update to 1.7.0.Björn Höfling
* gnu/packages/gps.scm (gpsbabel): Update to 1.7.0. [source]: Use git-fetch, remove obsolete patches. [inputs]: Add libusb. * gnu/packages/patches/gpsbabel-minizip.patch: Remove file. * gnu/packages/patches/gpsbabel-qstring.patch: Remove file. * gnu/local.mk (dist_patch_DATA): Remove entries. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2021-01-05gnu: smalltalk: Fix integer multiplication overflow.Miguel Ángel Arruga Vivas
* gnu/local.mk (dist_patch_DATA): Add Smalltalk patch. * gnu/packages/patches/smalltalk-multiplication-overflow.patch: Patch from upstream commit 72ada189aba0283c551ead16635c1983968080b8. * gnu/packages/smalltalk.scm (smalltalk): Use patch and link with gmp and lightning libraries instead of the included source.
2021-01-03gnu: pidgin: Enable MultiMedia and A/V support.Raghav Gururajan
* gnu/packages/messaging.scm (pidgin) [patches]<search-patches> [pidgin-vv-gst.patch]: New patch. [arguments]<#:configure-flags>[--diable-vv]: Remove flag. [--disable-gstreamer]: Remove flag. [CFLAGS]: New flag. [inputs]: Add farstream and gstreamer. Move gtk+-2 to ... [propagated-inputs]: ... here. * gnu/packages/patches/pidgin-vv-gst.patch: New file. * gnu/local.mk (dist_patch_DATA): Add entry. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2021-01-03gnu: pidgin: Upgrade to 2.14.1.Raghav Gururajan
* gnu/packages/messaging.scm (pidgin) [version]: Modify. [source]<origin>[sha256]: Modify base32. [patches]<search-patches>[pidgin-libnm.patch]: Remove obsolete patch. * gnu/packages/patches/pidgin-libnm.patch: Remove file. * gnu/local.mk (dist_patch_DATA): Remove entry. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2021-01-02gnu: Add Rust 1.48.Matthew Kraai
* gnu/packages/rust.scm (rust-1.48): New variable. Signed-off-by: Jakub Kądziołka <kuba@kadziolka.net>
2020-12-29Merge branch 'ungrafting' into stagingMarius Bakke
2020-12-29Merge branch 'master' into ungraftingMarius Bakke
2020-12-29gnu: Add shakespeare-spl.Leo Prikler
* gnu/packages/patches/shakespeare-spl-fix-grammar.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it here. * gnu/packages/esolangs.scm (shakespeare-spl): New variable.
2020-12-28gnu: dbxfs: Update to 1.0.48.Efraim Flashner
* gnu/packages/file-systems.scm (dbxfs): Update to 1.0.48. * gnu/packages/patches/dbxfs-remove-sentry-sdk.patch: Update for newer version of dbxfs.
2020-12-27gnu: audacity: Update to 2.4.2.Kei Kebreau
* gnu/packages/audio.scm (audacity): Update to 2.4.2. [source]: Add patch. Don't delete portaudio-v19, since only the bundled copy can be built. [build-system]: Switch to cmake-build-system. [inputs]: Remove portaudio. [arguments]: Adjust configure flags for CMake. Remove 'fix-sbsms-check phase. Add 'comment-out-revision-ident phase. * gnu/local.mk (dist_patch_DATA): Register patch. * gnu/packages/patches/audacity-add-include.patch: New file.
2020-12-23gnu: VLC: Fix build with Qt 5.15.Leo Famulari
* gnu/packages/patches/vlc-qt-5.15.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/video.scm (vlc)[source]: Use it.
2020-12-21Merge branch 'ungrafting' into stagingMarius Bakke
2020-12-21Merge branch 'master' into ungraftingMarius Bakke
2020-12-21gnu: sbc: Fix build on non-x86 architectures.Marius Bakke
* gnu/packages/patches/sbc-fix-build-non-x86.patch: New file. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/linux.scm (sbc)[source](patches): New field.
2020-12-21gnu: sdcc: Update to 4.0.0.Simon South
* gnu/packages/embedded.scm (sdcc): Update to 4.0.0. [native-inputs]: Add zlib. [description]: Update to match new version. * gnu/packages/patches/sdcc-disable-non-free-code.patch: Update to match new version. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2020-12-20gnu: libffi: Add unreleased patch to fix float128 on powerpc64le.John Doe
Fixes <https://bugs.gnu.org/45252>. * gnu/packages/patches/libffi-float128-powerpc64le.patch: Import patch file from <https://github.com/libffi/libffi/pull/561.patch>. * gnu/packages/libffi.scm (libffi)[arguments]: Apply patch conditionally for powerpc64le-* systems in a phase. [inputs]: Add patch as input conditionally for powerpc64le-* systems. * gnu/local.mk (dist_patch_DATA): Add patch file to build system. Signed-off-by: Chris Marusich <cmmarusich@gmail.com>
2020-12-20gnu: bear: Update to 3.0.4.Brett Gilio
* gnu/local.mk (bear-disable-preinstall-tests.patch): Add patch. * gnu/packages/build-tools.scm (bear): Reference patch, and update.
2020-12-19gnu: serf: Build with Python 3.Marius Bakke
* gnu/packages/patches/serf-python3.patch: New file. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/web.scm (serf)[source](patches): New field. [arguments]: Remove #:scons.
2020-12-17gnu: sudo: Update to 1.9.4p1.Tobias Geerinckx-Rice
* gnu/packages/admin.scm (sudo): Update to 1.9.4p1. [source]: Remove patch. * gnu/packages/patches/sudo-fix-build-without-sendmail.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2020-12-17gnu: Add aws-c-event-stream.Greg Hogan
* gnu/packages/c.scm (aws-c-event-stream): New variable. * gnu/packages/patches/aws-c-event-stream-cmake-prefix.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2020-12-17gnu: Add aws-checksums.Greg Hogan
* gnu/packages/c.scm (aws-checksums): New variable. * gnu/packages/patches/aws-checksums-cmake-prefix.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2020-12-15gnu: icecat: Update to 78.6.0-guix0-preview1 [security fixes].Mark H Weaver
Includes fixes for CVE-2020-16042, CVE-2020-26971, CVE-2020-26973, CVE-2020-26974, CVE-2020-26978, CVE-2020-35111, CVE-2020-35112, and CVE-2020-35113. * gnu/packages/gnuzilla.scm (%icecat-version, %icecat-build-id): Update. (icecat-source): Update gnuzilla commit, base version, and hashes. * gnu/packages/patches/icecat-makeicecat.patch: Adapt to new version.
2020-12-15gnu: Add rust-ndarray-0.12.Efraim Flashner
* gnu/packages/crates-io.scm (rust-ndarray-0.12): New variable. * gnu/packages/patches/rust-ndarray-remove-blas-src-dep.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it.
2020-12-14gnu: Add python-3.9.Tanguy Le Carrour
* gnu/packages/python.scm (python-3.9): New variable. * gnu/packages/patches/python-3.9-fix-tests.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
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