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2019-07-24gnu: Add r-depecher.zimoun
* gnu/packages/bioconductor.scm (r-depecher): New variable. Co-authored-by: Ricardo Wurmus <rekado@elephly.net> Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-07-24gnu: Add r-mixomics.zimoun
* gnu/packages/bioconductor.scm (r-mixomics): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-07-24gnu: Add r-flowsom.zimoun
* gnu/packages/bioconductor.scm (r-flowsom): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-07-24gnu: Add r-flowmeans.zimoun
* gnu/packages/bioconductor.scm (r-flowmeans): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-07-24gnu: Add r-consensusclusterplus.zimoun
* gnu/packages/bioconductor.scm (r-consensusclusterplus): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-07-24gnu: Add r-flowutils.zimoun
* gnu/packages/bioconductor.scm (r-flowutils): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-07-24gnu: Add r-flowcore.zimoun
* gnu/packages/bioconductor.scm (r-flowcore): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-07-24gnu: Add r-all.zimoun
* gnu/packages/bioconductor.scm (r-all): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-07-24gnu: Add r-kableextra.zimoun
* gnu/packages/cran.scm (r-kableextra): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-07-24gnu: Add r-umap.zimoun
* gnu/packages/cran.scm (r-umap): New variable. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-07-24gnu: emacs-gitpatch: Update to 0.5.1.Jelle Licht
* gnu/packages/emacs-xyz.scm (emacs-gitpatch): Update to 0.5.1.
2019-07-24gnu: terminator: Propagate gsettings-desktop-schemas.Tobias Geerinckx-Rice
* gnu/packages/gnome.scm (terminator)[propagated-inputs]: Add gsettings-desktop-schemas.
2019-07-24gnu: spice-gtk: Update to 0.37.Tobias Geerinckx-Rice
* gnu/packages/spice.scm (spice-gtk): Update to 0.37. [propagated-inputs]: Use latest spice-protocol. (spice-protocol-0.12): Remove unused variable.
2019-07-24gnu: libvirt-glib: Propagate pkg-config requirements.Tobias Geerinckx-Rice
* gnu/packages/virtualization.scm (libvirt-glib)[inputs]: Move glib, libvirt, libxml2, and gobject-introspection… [native-inputs]: …here.
2019-07-24gnu: libvirt-glib: Update to 2.0.0.Tobias Geerinckx-Rice
* gnu/packages/virtualization.scm (libvirt-glib): Update to 2.0.0. [arguments]: Remove ‘fix-tests’ phase.
2019-07-24doc: Warn about GPG warning.Leo Famulari
* doc/guix.texi (Binary Installation, USB Stick and DVD Installation): Warn users about the web-of-trust untrusted key warning from GPG.
2019-07-24deploy: Handle the '--system' command line option.宋文武
* guix/scripts/deploy.scm (show-help): Add help for '--system'. (%options): Add '-s' and '--system'. (guix-deploy): Parameterize %current-system.
2019-07-24deploy: Honor '--no-grafts'.宋文武
* guix/scripts/deploy.scm (guix-deploy): Parameterize '%graft?'.
2019-07-24gnu: julia: Update to 1.1.1.Nicolò Balzarotti
* gnu/packages/julia.scm (libuv-julia): Update to commit 26dbe56. (libunwind-for-julia): Remove. (llvm-patch-url, llvm-patch): New procedures. (llvm-julia): New variable. (julia): Update to 1.1.1. [arguments]: Adjust 'prepare-deps' to new set of dependencies. Adjust 'hardcode-soname-map': remove openlibm and libfftw handling. Update file names in 'fix-include-and-link-paths' and 'hardcode-paths'. Adjust 'disable-broken-tests'. Pass PREFIX, LIBFLAS, and LIBBLASNAME in #:make-flags; update other flags. [inputs]: Replace LLVM-3.9.1 with LLVM-JULIA. Replace LIBUNWIND-FOR-JULIA with LIBUNWIND. Add "rmath" and "libwhich". [native-inputs]: Remove "unicode-data". Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2019-07-24gnu: llvm: Add 'system->llvm-target' procedure.Ludovic Courtès
* gnu/packages/llvm.scm (system->llvm-target): New procedure.
2019-07-23doc: Add example for generating a secret key with knot DNS.Julien Lepiller
* doc/guix.texi (DNS Services): Add an example and more context to the includes field of the knot-configuration record.
2019-07-23gnu: terminology: Update to 1.5.0.Efraim Flashner
* gnu/packages/enlightenment.scm (terminology): Update to 1.5.0.
2019-07-23gnu: emacs-request: Update to 0.3.1.Mathieu Lirzin
* gnu/packages/emacs-xyz.scm (emacs-request): Update to 0.3.1. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2019-07-23gnu: emacs-google-translate: Update to 0.11.18.Mathieu Lirzin
* gnu/packages/emacs-xyz.scm (emacs-google-translate): Update to 0.11.18. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2019-07-23Makefile: Sort scheme tests alphabetically.Robert Vollmert
* Makefile.am (SCM_TESTS): Sort. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2019-07-23gnu: mallard-ducktype: Update to 1.0.2.Jack Hill
* gnu/packages/python-xyz.scm (mallard-ducktype) Update to 1.0.2. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2019-07-22gnu: harmonist: Update to 0.2.Julien Lepiller
* gnu/packages/games.scm (harmonist): Update to 0.2.
2019-07-22gnu: vlc: Build against libvpx@1.8.Marius Bakke
* gnu/packages/video.scm (vlc)[inputs]: Change LIBVPX-1.7 to LIBVPX.
2019-07-22gnu: libvpx: Update to 1.8.1.Marius Bakke
* gnu/packages/video.scm (libvpx): Update to 1.8.1.
2019-07-22gnu: zstd: Update to 1.4.1.Marius Bakke
* gnu/packages/compression.scm (zstd): Update to 1.4.1.
2019-07-22gnu: zstd: Move libraries to separate outputs.Marius Bakke
* gnu/packages/compression.scm (zstd)[outputs]: New field. [arguments]: Add phase 'adjust-libary-locations'. Pass LIBDIR and INCLUDEDIR in <#:make-flags>. * gnu/packages/backup.scm (borg)[inputs]: Change ZSTD to ZSTD:LIB. * gnu/packages/sync.scm (casync)[inputs]: Likewise. * gnu/packages/tor.scm (tor)[inputs]: Likewise. * gnu/packages/linux.scm (btrfs-progs)[inputs]: Likewise. Add ZSTD:STATIC.
2019-07-22gnu: whois: Update to 5.5.0.Marius Bakke
* gnu/packages/networking.scm (whois): Update to 5.5.0.
2019-07-22gnu: jsoncpp: Update to 1.9.1.Marius Bakke
* gnu/packages/serialization.scm (jsoncpp): Update to 1.9.1.
2019-07-22gnu: ffmpeg: Update to 4.1.4.Marius Bakke
* gnu/packages/video.scm (ffmpeg): Update to 4.1.4.
2019-07-22gnu: x265: Update to 3.1.1.Marius Bakke
* gnu/packages/video.scm (x265): Update to 3.1.1.
2019-07-22gnu: ungoogled-chromium: Enable parallel build.Marius Bakke
...but limit the memory usage. Tested with --cores=8 on a 16 GiB RAM machine. * gnu/packages/chromium.scm (ungoogled-chromium)[arguments]: Remove <#:parallel-build?>. Add "jumbo_file_merge_limit=8" in <#:configure-flags>.
2019-07-22gnu: htslib: Propagate zlib.Ricardo Wurmus
Reported by Vedran Franke <Vedran.Franke@mdc-berlin.de>. * gnu/packages/bioinformatics.scm (htslib)[inputs]: Move zlib from here... [propagated-inputs]: ...to here.
2019-07-22pack: Pass a list as the entry point for 'build-docker-image'.Ludovic Courtès
* guix/scripts/pack.scm (docker-image)[build]: Pass a list as #:entry-point, not a string.
2019-07-22swh: Add basic tests.Ludovic Courtès
* guix/swh.scm (%swh-base-url): Turn into a parameter and export it. * tests/swh.scm: New file. * Makefile.am (SCM_TESTS): Add it.
2019-07-22doc: Update 'guix import json' example.Ludovic Courtès
This is a followup to d78010b81ee6ef4fd8803082e2f401b9e55b44db. * doc/guix.texi (Invoking guix import): Change 'guix import json' example to refer to "gettext", not "gcc".
2019-07-22gnu: perl-net-http: Update to 6.19.Efraim Flashner
* gnu/packages/web.scm (perl-net-httpd): Update to 6.19.
2019-07-22gnu: perl-test-simple: Update to 1.302164.Efraim Flashner
* gnu/packages/perl-check.scm (perl-test-simple): Update to 1.302164.
2019-07-22gnu: perl-cpan-meta: Update to 2.150010.Efraim Flashner
* gnu/packages/perl.scm (perl-cpan-meta): Update to 2.150010.
2019-07-22gnu: perl-clone: Update to 0.42.Efraim Flashner
* gnu/packages/perl.scm (perl-clone): Update to 0.42.
2019-07-22gnu: perl-hash-merge: Update to 0.300.Efraim Flashner
* gnu/packages/perl.scm (perl-hash-merge): Update to 0.300. [inputs]: Add perl-clone-choose.
2019-07-22gnu: mallard-ducktype: Run tests.Efraim Flashner
* gnu/packages/python-xyz.scm (mallard-ducktype)[arguments]: Replace 'check phase to run test suite.
2019-07-22gnu: oil-shell: Update to 0.6.0Robert Vollmert
* gnu/packages/shells.scm (oil-shell): Update to 0.6.0. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2019-07-21gnu: libreoffice: Fix xdg-open absolute paths.Chris Marusich
Fixes: <https://bugs.gnu.org/36728>. * gnu/packages/libreoffice.scm (libreoffice) [inputs]: Add xdg-utils. [arguments][#:phases][prepare-src]: Replace hard-coded absolute paths to xdg-open in the source with the path to xdg-open in the xdg-utils input.
2019-07-21gnu: libosinfo: Update to 1.5.0.Tobias Geerinckx-Rice
* gnu/packages/virtualization.scm (libosinfo): Update to 1.5.0. [arguments]: Remove ‘disable-broken-test’ phase. [native-inputs]: Remove check.
2019-07-21gnu: linux-libre: Update to 5.2.2.Mark H Weaver
* gnu/packages/linux.scm (linux-libre-5.2-version): Update to 5.2.2. (linux-libre-5.2-pristine-source): Update hash.
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