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* gnu: bedtools: Use samtools-1.9.•••The build for bedtools with samtools 1.11 triggers a testsuite failure which is reported here: https://github.com/arq5x/bedtools2/issues/814 * gnu/packages/bioinformatics.scm (bedtools): Use samtools-1.9. Roel Janssen2020-11-13
* gnu: Add samtools-1.9.•••* gnu/packages/bioinformatics.scm (samtools-1.9): New variable. Roel Janssen2020-11-13
* gnu: Add htslib-1.9.•••* gnu/packages/bioinformatics.scm (htslib-1.9): New variable. Roel Janssen2020-11-13
* gnu: vim: Update to 8.2.1980.•••* gnu/packages/vim.scm (vim): Update to 8.2.1980. Tobias Geerinckx-Rice2020-11-13
* gnu: criu: Support nftables.•••* gnu/packages/virtualization.scm (criu)[inputs]: Add nftables. Tobias Geerinckx-Rice2020-11-13
* gnu: criu: Update to 3.15.•••* gnu/packages/virtualization.scm (criu): Update to 3.15. Tobias Geerinckx-Rice2020-11-13
* gnu: youtube-dl: Update to 2020.11.12.•••* gnu/packages/video.scm (youtube-dl): Update to 2020.11.12. Tobias Geerinckx-Rice2020-11-13
* gnu: knot: Update to 3.0.2.•••* gnu/packages/dns.scm (knot): Update to 3.0.2. Tobias Geerinckx-Rice2020-11-13
* gnu: muchsync: Update to 6.•••* gnu/packages/mail.scm (muchsync): Update to 6. Tobias Geerinckx-Rice2020-11-13
* gnu: gpxsee: Update to 7.36.•••* gnu/packages/gps.scm (gpxsee): Update to 7.36. Tobias Geerinckx-Rice2020-11-13
* gnu: alot: Update to 0.9.1.•••* gnu/packages/mail.scm (alot): Update to 0.9.1. [arguments]: Fix some tests and disable some others. [native-inputs]: Add procps. [inputs]: Remove python2-magic, python2-configobj, python2-twisted, python2-urwid, python2-urwidtrees, python2-pygpgme and python2-notmuch. Add gnupg, python-magic, python-configobj, python-twisted, python-service-identity, python-urwid, python-urwidtrees, python-gpg and python-notmuch. [synopsis]: Update synopsis. [description]: Update description. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr> Tanguy Le Carrour2020-11-12
* gnu: afew: Update to 3.0.1.•••* gnu/packages/mail.scm (afew): Update to 3.0.1. [inputs]: Add notmuch and python-dkimpy. [native-inputs]: Add python-freezegun. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr> Tanguy Le Carrour2020-11-12
* gnu: ungoogled-chromium: Update to 86.0.4240.198-0.b68e17f [security fixes].•••This fixes CVE-2020-16013 and CVE-2020-16017. * gnu/packages/chromium.scm (%chromium-version): Set to 86.0.4240.198. (ungoogled-chromium): Update hash. Marius Bakke2020-11-12
* gnu: tor: Update to 0.4.4.6 [fixes TROVE-2020-005].•••* gnu/packages/tor.scm (tor): Update to 0.4.4.6. Tobias Geerinckx-Rice2020-11-12
* gnu: emacs-lispy: Update to 20201109.•••* gnu/packages/emacs-xyz.scm (emacs-lispy): Update to 20201109. [native-inputs]: Add which. [arguments]: Fix test command to not use straight.el and disable failing test related to Clojure. Pierre Neidhardt2020-11-12
* Merge branch 'version-1.2.0'Ludovic Courtès2020-11-12
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| * vm: expression->derivation-in-linux-vm: Run in a UTF-8 locale.•••* gnu/system/vm.scm (expression->derivation-in-linux-vm): Add calls to 'setenv' and 'setlocale'. Ludovic Courtès2020-11-10
| * gnu: audiofile: Shorten patch file names.•••At least 'audiofile-division-by-zero-BlockCodec-runPull.patch' could end up not being included in a tarball. * gnu/packages/patches/audiofile-Check-the-number-of-coefficients.patch: Rename to... * gnu/packages/patches/audiofile-check-number-of-coefficients.patch: ... this. * gnu/packages/patches/audiofile-division-by-zero-BlockCodec-runPull.patch: Rename to... * gnu/packages/patches/audiofile-division-by-zero.patch: ....this. * gnu/packages/patches/audiofile-signature-of-multiplyCheckOverflow.patch: Rename to... * gnu/packages/patches/audiofile-function-signature.patch: ... this. * gnu/packages/patches/audiofile-Fix-multiply-overflow-sfconvert.patch: Rename to.... * gnu/packages/patches/audiofile-multiply-overflow.patch: ... this. * gnu/packages/patches/audiofile-Fix-overflow-in-MSADPCM-decodeSam.patch: Rename to... * gnu/packages/patches/audiofile-overflow-in-MSADPCM.patch: ... this. * gnu/packages/audio.scm (audiofile)[source]: Adjust accordingly. * gnu/local.mk (dist_patch_DATA): Likewise. Ludovic Courtès2020-11-10
| * gnu: python2-pygobject@2: Shorten patch file name.•••The file would not be included in the tarball produced by "make dist" because its name was too long. * gnu/packages/patches/python2-pygobject-2-gi-info-type-error-domain.patch: Rename to... * gnu/packages/patches/python2-pygobject-2-deprecation.patch: ... this. * gnu/packages/glib.scm (python2-pygobject-2)[source]: Adjust accordingly. * gnu/local.mk (dist_patch_DATA): Likewise. Ludovic Courtès2020-11-10
| * vm: 'system-qemu-image' forces the use of i386/BIOS GRUB.•••Fixes <https://bugs.gnu.org/44511>. Reported by Maxim Cournoyer <maxim.cournoyer@gmail.com>. * gnu/system/vm.scm (system-qemu-image): Add 'bootloader' field to OS. Ludovic Courtès2020-11-10
| * machine: ssh: Do not import the host (guix config).•••* gnu/machine/ssh.scm (machine-boot-parameters): Use 'make-config.scm' for (guix config). Ludovic Courtès2020-11-09
| * services: nginx: Re-introduce server-names-hash-bucket-size.•••This was unintentionally removed in 00014f769233facebd84f13a00b10032a22cb440. * gnu/services/web.scm (default-nginx-config): Re-introduce processing of server-names-hash-bucket-size option. Julien Lepiller2020-11-09
| * installer: parted: Add debug output.•••* gnu/installer/parted.scm (mkpart): Log partition creation. Mathieu Othacehe2020-11-08
| * gnu: cross-base: Move glibc Hurd patches to 'inputs'.•••Fixes "guix build --target=i586-pc-gnu bootstrap-tarballs". * gnu/packages/cross-base.scm (cross-libc): Move Hurd patches from 'native-inputs' to 'inputs'. Ludovic Courtès2020-11-08
| * image: Offload "disk-image" derivations.•••This is a followup to 99efa804bd6df5de4760ec5974ed2297f1746366. * gnu/system/image.scm (system-disk-image): Pass #:local-build? #f to 'computed-file'. Ludovic Courtès2020-11-08
| * installer: Limit listbox height.•••Fixes: <https://issues.guix.gnu.org/44428>. * gnu/installer/newt.scm (init): Print screen size. * gnu/installer/newt/page.scm (default-listbox-height): New variable. (run-listbox-selection-page): Use it. * gnu/installer/newt/wifi.scm (wifi-listbox-height): Ditto. * gnu/installer/newt/network.scm (run-technology-page): Set the maximum listbox height to 5. * gnu/installer/newt/ethernet.scm (run-ethernet-page): Ditto. * gnu/installer/newt/final.scm (run-config-display-page): Change listbox height. * gnu/installer/newt/partition.scm (run-disk-page): Ditto. * gnu/installer/newt/welcome.scm (display-logo?): New procedure. (run-menu-page): Use it. * gnu/installer/steps.scm (%configuration-file-width): Remove it. Mathieu Othacehe2020-11-08
| * tests: nfs-root-fs: Use the right store file name.•••* gnu/tests/nfs.scm (run-nfs-root-fs-test): Pass "nfs-root-fs-test" as the first argument to 'gexp->derivation'. Ludovic Courtès2020-11-07
| * tests: git-http: Avoid race condition.•••* gnu/tests/version-control.scm (run-git-http-test)[test]("fcgiwrap listens"): New test. Ludovic Courtès2020-11-07
| * gnu: libffi: Fix building on powerpc.•••* gnu/packages/libffi.scm (libffi)[inputs]: New field. [arguments]: Add 'apply-patch' phase when targeting PowerPC. * gnu/packages/patches/libffi-3.3-powerpc-fixes.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. Co-authored-by: Ludovic Courtès <ludo@gnu.org> Efraim Flashner2020-11-07
| * tests: mpd: Remove race condition; use default MPD configuration.•••* gnu/tests/audio.scm (%mpd-os): Use the default 'mpd-configuration'. (run-mpd-test)[test]("mpd listening"): New test. ("mpc connect"): Use 'system*' and 'test-equal'. Ludovic Courtès2020-11-06
| * services: mpd: Fix daemon startup.•••Until now it would wait for a PID file that'd never come. * gnu/services/audio.scm (mpd-shepherd-service): Add 'requirement'. Remove #:pid-file from 'start'. (mpd-service-activation): Create the ".mpd" directory since that's what the daemon expects. Ludovic Courtès2020-11-06
| * services: mpd: Always create the "mpd" user account.•••* gnu/services/audio.scm (%mpd-accounts): New variable. (mpd-service-type)[extensions]: Add ACCOUNT-SERVICE-TYPE extension. Ludovic Courtès2020-11-06
| * tests: docker-system: Increase VM memory.•••The test was failing with ENOSPC. * gnu/tests/docker.scm (run-docker-system-test)[vm]: Increase 'memory-size'. (%test-docker-system): Change 'locale-libcs' for the OS passed to 'system-docker-image'. Ludovic Courtès2020-11-06
| * services: mpd: Do not eagerly look for a user.•••Running 'guix system search mpd' would throw a backtrace because the mpd-shepherd-service service start Gexp contained an unquoted call to 'getpwnam', which would look for a missing 'mpd' user and fail. * gnu/services/audio.scm (mpd-shepherd-service): gexp-unquote only the relevant variable rather than the whole expression. Maxim Cournoyer2020-11-06
* | gnu: sbcl-cffi-libffi: Fix building on ARM hardware.•••* gnu/packages/lisp-xyz.scm (sbcl-cffi-libffi-bootstrap)[arguments]: Add phase to adapt code to changes in libffi. Efraim Flashner2020-11-11
* | gnu: sbcl-cffi-grovel: End all phases with #t.•••* gnu/packages/lisp-xyz.scm (sbcl-cffi-grovel)[arguments]: End custom 'install-headers phase with #t. Efraim Flashner2020-11-11
* | gnu: python-matplotlib: Remove unused input.•••* gnu/packages/python-xyz.scm (python-matplotlib)[inputs]: Remove IMAGEMAGICK. Marius Bakke2020-11-11
* | gnu: i3lock-fancy: Fix defunct substitution.•••* gnu/packages/wm.scm (i3lock-fancy)[arguments]: Fix faulty regular expression. Marius Bakke2020-11-11
* | gnu: i3lock-fancy: Inputs are not native.•••* gnu/packages/wm.scm (i3lock-fancy)[native-inputs]: Move everything ... [inputs]: ... here. Marius Bakke2020-11-11
* | gnu: a2ps: Remove unused input.•••* gnu/packages/pretty-print.scm (a2ps)[inputs]: Remove IMAGEMAGICK. Marius Bakke2020-11-11
* | gnu: fbida: Remove unused input.•••* gnu/packages/pdf.scm (fbida)[inputs]: Remove IMAGEMAGICK. Marius Bakke2020-11-11
* | gnu: caja-extensions: Remove unused input.•••* gnu/packages/mate.scm (caja-extensions)[inputs]: Remove IMAGEMAGICK. Marius Bakke2020-11-11
* | gnu: mgba: Remove unused input.•••* gnu/packages/emulators.scm (mgba)[inputs]: Remove IMAGEMAGICK. Marius Bakke2020-11-11
* | gnu: networking.scm: Remove unused module import.•••* gnu/packages/networking.scm: Don't import (gnu packages version-control). Marius Bakke2020-11-11
* | gnu: emacs.scm: Remove unused module import.•••* gnu/packages/emacs.scm: Don't import (gnu packages imagemagick). Marius Bakke2020-11-11
* | gnu: python-libtmux: Update to 0.8.5.•••* gnu/packages/tmux.scm (python-libtmux): Update to 0.8.5. [arguments]: Set LANG to make the test suite pass. Tobias Geerinckx-Rice2020-11-11
* | gnu: evisum: Update to 0.5.7.•••* gnu/packages/enlightenment.scm (evisum): Update to 0.5.7. Tobias Geerinckx-Rice2020-11-11
* | gnu: xfce4-screensaver: Update to 0.1.11.•••* gnu/packages/xfce.scm (xfce4-screensaver): Update to 0.1.11. Tobias Geerinckx-Rice2020-11-11
* | gnu: xfce4-weather-plugin: Update to 0.10.2.•••* gnu/packages/xfce.scm (xfce4-weather-plugin): Update to 0.10.2. Tobias Geerinckx-Rice2020-11-11
* | gnu: linux-libre 4.4: Update to 4.4.243.•••* gnu/packages/linux.scm (linux-libre-4.4-version): Update to 4.4.243. (linux-libre-4.4-pristine-source): Update hash. Leo Famulari2020-11-11
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