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2020-11-13gnu: julia: Update to 1.5.3.Tobias Geerinckx-Rice
* gnu/packages/julia.scm (julia): Update to 1.5.3. (libuv-julia): Update to 1fcc6d66f9df74189c74d3d390f02202bb7db953. (julia-patch): Update version. No change to patches.
2020-11-13gnu: libwhich: Compile natively, too.Tobias Geerinckx-Rice
This follows up on commit 12424b3ecfdf401c72804ddfa4b2fa2d8b1b68e5. * gnu/packages/julia.scm (libwhich)[arguments]: Fix non-cross compilation.
2020-11-13gnu: Fix build for python-pysam.Roel Janssen
* gnu/packages/bioinformatics.scm (python-pysam): Use htslib-1.9, samtools-1.9, and bcftools-1.9.
2020-11-13gnu: Add bcftools-1.9.Roel Janssen
* gnu/packages/bioinformatics.scm (bcftools-1.9): New variable.
2020-11-13gnu: dino: Update to 0.2.0Ekaitz Zarraga
Update of the recently released Dino 0.2.0 version. Thanks! From 0b764d48996f3851ee2596a25f1fd42a8d3f4063 Mon Sep 17 00:00:00 2001 From: Ekaitz Zarraga <ekaitz@elenq.tech> Date: Fri, 13 Nov 2020 12:18:11 +0100 Subject: [PATCH] gnu: dino: Update to 0.2.0 * gnu/packages/messaging.scm (dino): Update to 0.2.0 Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
2020-11-13gnu: libwhich: Cross-compile.Tobias Geerinckx-Rice
* gnu/packages/julia.scm (libwhich)[arguments]: Use CC-FOR-TARGET. Look for zlib in NATIVE-INPUTS.
2020-11-13gnu: bedtools: Use samtools-1.9.Roel Janssen
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.
2020-11-13gnu: Add samtools-1.9.Roel Janssen
* gnu/packages/bioinformatics.scm (samtools-1.9): New variable.
2020-11-13gnu: Add htslib-1.9.Roel Janssen
* gnu/packages/bioinformatics.scm (htslib-1.9): New variable.
2020-11-13gnu: vim: Update to 8.2.1980.Tobias Geerinckx-Rice
* gnu/packages/vim.scm (vim): Update to 8.2.1980.
2020-11-13gnu: criu: Support nftables.Tobias Geerinckx-Rice
* gnu/packages/virtualization.scm (criu)[inputs]: Add nftables.
2020-11-13gnu: criu: Update to 3.15.Tobias Geerinckx-Rice
* gnu/packages/virtualization.scm (criu): Update to 3.15.
2020-11-13gnu: youtube-dl: Update to 2020.11.12.Tobias Geerinckx-Rice
* gnu/packages/video.scm (youtube-dl): Update to 2020.11.12.
2020-11-13gnu: knot: Update to 3.0.2.Tobias Geerinckx-Rice
* gnu/packages/dns.scm (knot): Update to 3.0.2.
2020-11-13gnu: muchsync: Update to 6.Tobias Geerinckx-Rice
* gnu/packages/mail.scm (muchsync): Update to 6.
2020-11-13gnu: gpxsee: Update to 7.36.Tobias Geerinckx-Rice
* gnu/packages/gps.scm (gpxsee): Update to 7.36.
2020-11-12gnu: alot: Update to 0.9.1.Tanguy Le Carrour
* 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>
2020-11-12gnu: afew: Update to 3.0.1.Tanguy Le Carrour
* 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>
2020-11-12gnu: ungoogled-chromium: Update to 86.0.4240.198-0.b68e17f [security fixes].Marius Bakke
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.
2020-11-12gnu: tor: Update to 0.4.4.6 [fixes TROVE-2020-005].Tobias Geerinckx-Rice
* gnu/packages/tor.scm (tor): Update to 0.4.4.6.
2020-11-12gnu: emacs-lispy: Update to 20201109.Pierre Neidhardt
* 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.
2020-11-12Merge branch 'version-1.2.0'Ludovic Courtès
2020-11-11gnu: sbcl-cffi-libffi: Fix building on ARM hardware.Efraim Flashner
* gnu/packages/lisp-xyz.scm (sbcl-cffi-libffi-bootstrap)[arguments]: Add phase to adapt code to changes in libffi.
2020-11-11gnu: sbcl-cffi-grovel: End all phases with #t.Efraim Flashner
* gnu/packages/lisp-xyz.scm (sbcl-cffi-grovel)[arguments]: End custom 'install-headers phase with #t.
2020-11-11gnu: python-matplotlib: Remove unused input.Marius Bakke
* gnu/packages/python-xyz.scm (python-matplotlib)[inputs]: Remove IMAGEMAGICK.
2020-11-11gnu: i3lock-fancy: Fix defunct substitution.Marius Bakke
* gnu/packages/wm.scm (i3lock-fancy)[arguments]: Fix faulty regular expression.
2020-11-11gnu: i3lock-fancy: Inputs are not native.Marius Bakke
* gnu/packages/wm.scm (i3lock-fancy)[native-inputs]: Move everything ... [inputs]: ... here.
2020-11-11gnu: a2ps: Remove unused input.Marius Bakke
* gnu/packages/pretty-print.scm (a2ps)[inputs]: Remove IMAGEMAGICK.
2020-11-11gnu: fbida: Remove unused input.Marius Bakke
* gnu/packages/pdf.scm (fbida)[inputs]: Remove IMAGEMAGICK.
2020-11-11gnu: caja-extensions: Remove unused input.Marius Bakke
* gnu/packages/mate.scm (caja-extensions)[inputs]: Remove IMAGEMAGICK.
2020-11-11gnu: mgba: Remove unused input.Marius Bakke
* gnu/packages/emulators.scm (mgba)[inputs]: Remove IMAGEMAGICK.
2020-11-11gnu: networking.scm: Remove unused module import.Marius Bakke
* gnu/packages/networking.scm: Don't import (gnu packages version-control).
2020-11-11gnu: emacs.scm: Remove unused module import.Marius Bakke
* gnu/packages/emacs.scm: Don't import (gnu packages imagemagick).
2020-11-11gnu: python-libtmux: Update to 0.8.5.Tobias Geerinckx-Rice
* gnu/packages/tmux.scm (python-libtmux): Update to 0.8.5. [arguments]: Set LANG to make the test suite pass.
2020-11-11gnu: evisum: Update to 0.5.7.Tobias Geerinckx-Rice
* gnu/packages/enlightenment.scm (evisum): Update to 0.5.7.
2020-11-11gnu: xfce4-screensaver: Update to 0.1.11.Tobias Geerinckx-Rice
* gnu/packages/xfce.scm (xfce4-screensaver): Update to 0.1.11.
2020-11-11gnu: xfce4-weather-plugin: Update to 0.10.2.Tobias Geerinckx-Rice
* gnu/packages/xfce.scm (xfce4-weather-plugin): Update to 0.10.2.
2020-11-11gnu: linux-libre 4.4: Update to 4.4.243.Leo Famulari
* gnu/packages/linux.scm (linux-libre-4.4-version): Update to 4.4.243. (linux-libre-4.4-pristine-source): Update hash.
2020-11-11gnu: linux-libre 4.9: Update to 4.9.243.Leo Famulari
* gnu/packages/linux.scm (linux-libre-4.9-version): Update to 4.9.243. (linux-libre-4.9-pristine-source): Update hash.
2020-11-11gnu: linux-libre 4.14: Update to 4.14.206.Leo Famulari
* gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.206. (linux-libre-4.14-pristine-source): Update hash.
2020-11-11gnu: linux-libre 4.19: Update to 4.19.157.Leo Famulari
* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.157. (linux-libre-4.19-pristine-source): Update hash.
2020-11-11gnu: linux-libre 5.4: Update to 5.4.77.Leo Famulari
* gnu/packages/linux.scm (linux-libre-5.4-version): Update to 5.4.77. (deblob-scripts-5.4, linux-libre-5.4-pristine-source): Update hashes.
2020-11-11gnu: linux-libre: Update to 5.9.8.Leo Famulari
* gnu/packages/linux.scm (linux-libre-5.9-version): Update to 5.9.8. (deblob-scripts-5.9, linux-libre-5.9-pristine-source): Update hashes.
2020-11-11gnu: eid-mw: Don't try to bootstrap twice.Tobias Geerinckx-Rice
* gnu/packages/security-token.scm (eid-mw)[arguments]: Replace the build system's ‘bootstrap’ phase instead of creating another one.
2020-11-11gnu: eid-mw: Update to 5.0.8.Raphaël Mélotte
* gnu/packages/security-token.scm (eid-mw): Update to 5.0.8. [arguments]: Add a ‘remove-failing-test’ phase. [inputs]: Add autoconf-archive and libassuan. Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
2020-11-11gnu: eid-mw: Build reproducibly.Raphaël Mélotte
* gnu/packages/security-token.scm (eid-mw)[arguments]: Add a "make-reproducible" phase to set build date to the epoch. Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
2020-11-11gnu: python-aiosmtpd: Update to 1.2.2.Tobias Geerinckx-Rice
* gnu/packages/mail.scm (python-aiosmtpd): Update to 1.2.2.
2020-11-11gnu: chatty: Update to 0.1.17.Tobias Geerinckx-Rice
* gnu/packages/messaging.scm (chatty): Update to 0.1.17.
2020-11-11gnu: perl-list-moreutils-xs: Update to 0.430.Tobias Geerinckx-Rice
* gnu/packages/perl.scm (perl-list-moreutils-xs): Update to 0.430.
2020-11-11gnu: perl-list-moreutils: Update to 0.430.Tobias Geerinckx-Rice
* gnu/packages/perl.scm (perl-list-moreutils): Update to 0.430.
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