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Author SHA1 Message Date
Vinicius Monego d6817e0086
gnu: mlt: Update to 6.20.0. 
* gnu/packages/video.scm (mlt): Update to 6.20.0.

Signed-off-by: Marius Bakke <marius@gnu.org>
 2020-06-22 23:52:55 +02:00
Vinicius Monego 9305dfb9fd
gnu: darktable: Update to 3.0.2. 
* gnu/packages/photo.scm (darktable): Update to 3.0.2.
[arguments]: Compile with clang.  Wrap GSETTINGS_SCHEMAS_DIR.
[license]: Add license information for Rawspeed.
[native-inputs]: Add clang, desktop-file-utils, glib, gobject-instrospection,
llvm, and po4a.  Reorder alphabetically.
[inputs]: Add colord-gtk, cups, graphicsmagick, gsettings-desktop-schemas,
iso-codes, libsecret, lua, openjpeg, and osm-gps-map.  Reorder alphabetically.

Signed-off-by: Marius Bakke <marius@gnu.org>
 2020-06-22 23:52:55 +02:00
Simon South a212006048
gnu: jamvm: Fix to work with current gcc and glibc. 
* gnu/packages/java.scm (jamvm)[source]: Add patch.
(jamvm-1-bootstrap)[native-inputs]: Remove.
* gnu/packages/patches/jamvm-2.0.0-disable-branch-patching.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.

Signed-off-by: Marius Bakke <marius@gnu.org>
 2020-06-22 23:52:55 +02:00
Giacomo Leidi cf66096d51
gnu: template-glib: Update to 3.34.0. 
* gnu/packages/glib.scm (template-glib): Update to 3.34.0.

Signed-off-by: Marius Bakke <marius@gnu.org>
 2020-06-22 23:52:54 +02:00
Edouard Klein 3e84503cb2
gnu: Add python-daemux. 
* gnu/packages/tmux.scm (python-daemux): New variable.

Signed-off-by: Marius Bakke <marius@gnu.org>
 2020-06-22 23:52:54 +02:00
Edouard Klein 3565a30f70
gnu: Add python-libtmux. 
* gnu/packages/tmux.scm (python-libtmux): New variable.

Signed-off-by: Marius Bakke <marius@gnu.org>
 2020-06-22 23:52:54 +02:00
Edouard Klein 9d0e87f8ed
gnu: Add python-pyfiglet. 
* gnu/packages/python-xyz.scm (python-pyfiglet): New variable.

Signed-off-by: Marius Bakke <marius@gnu.org>
 2020-06-22 23:52:54 +02:00
Edouard Klein 24297a9a9c
gnu: Add python-flask-restx. 
* gnu/packages/python-web.scm (python-flask-restx): New variable.

Signed-off-by: Marius Bakke <marius@gnu.org>
 2020-06-22 23:52:54 +02:00
Edouard Klein 85acb5f53d
gnu: Add python-pytest-flask. 
* gnu/packages/python-check.scm (python-pytest-flask): New variable.

Signed-off-by: Marius Bakke <marius@gnu.org>
 2020-06-22 23:52:54 +02:00
Edouard Klein 857c63fe03
gnu: Add python-pytest-benchmark. 
* gnu/packages/python-check.scm (python-pytest-benchmark): New variable.

Signed-off-by: Marius Bakke <marius@gnu.org>
 2020-06-22 23:52:54 +02:00
Edouard Klein bb7e9ab755
gnu: Add python-py-cpuinfo. 
* gnu/packages/python-xyz.scm (python-py-cpuinfo): New variable.

Signed-off-by: Marius Bakke <marius@gnu.org>
 2020-06-22 23:52:53 +02:00
Nicolas Goaziou 68a6070bc3
gnu: Add abe. 
* gnu/packages/games.scm (abe): New variable.
 2020-06-22 22:06:06 +02:00
Jonathan Brielmaier 5d9540ddcf
gnu: mate: Don't propagate glib:bin. 
* gnu/packages/mate.scm (mate)[propagated-inputs]: Remove as the
proper fix arrived from core-updates.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-06-22 21:28:12 +03:00
Jonathan Brielmaier a2ebd098d7
gnu: mate-common: Update to 1.24.1. 
* gnu/packages/mate.scm (mate-common): Update to 1.24.1.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-06-22 21:27:38 +03:00
Vinicius Monego bf2ffbcd77
gnu: Add python-pytest-lazy-fixture. 
* gnu/packages/check.scm (python-pytest-lazy-fixture): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2020-06-22 21:18:40 +03:00
Ricardo Wurmus af02327856
gnu: r-with-tests, r-minimal: Update to 4.0.2. 
* gnu/packages/statistics.scm (r-with-tests, r-minimal): Update to 4.0.2.
 2020-06-22 18:28:52 +02:00
Mathieu Othacehe 7f75a7ec08
system: image: Remove "image-root" when building raw disk-images. 
The "image-root" derivation output is used as a temporary directory that is
passed to mke2fs and mkdosfs later on. By merging the creation of this
directory and the production of partition images, we can get rid of the
derivation.

As mke2fs and mkdosfs are not able to override file permissions, call those
commands with fakeroot. This way, all the image files will be owned by root,
even if image generation is done in an unprivilegded context.

* gnu/system/image.scm (system-disk-image): Merge "image-root" and
"iso9660-image" derivations so that we spare an extra derivation. Also add
"fakeroot" and its runtime dependencies to the inputs.
* gnu/build/image.scm (make-ext-image, make-vfat-image): Make sure that mke2fs
and mkdosfs are respectively called by fakeroot.
 2020-06-22 17:49:19 +02:00
Marius Bakke cf14e67963
gnu: gn: Update to 0.0-1794.eb997b5. 
* gnu/packages/build-tools.scm (gn): Update to 0.0-1794.eb997b5.
 2020-06-22 17:16:39 +02:00
Marius Bakke 75527eb1cb
gnu: ungoogled-chromium: Update to 83.0.4103.106-0.f08ce8b [security fixes]. 
This fixes CVE-2020-6465, CVE-2020-6466, CVE-2020-6467, CVE-2020-6468,
CVE-2020-6469, CVE-2020-6470, CVE-2020-6471, CVE-2020-6472, CVE-2020-6473,
CVE-2020-6474, CVE-2020-6475, CVE-2020-6476, CVE-2020-6477, CVE-2020-6478,
CVE-2020-6479, CVE-2020-6480, CVE-2020-6481, CVE-2020-6482, CVE-2020-6483,
CVE-2020-6484, CVE-2020-6485, CVE-2020-6486, CVE-2020-6487, CVE-2020-6488,
CVE-2020-6489, CVE-2020-6490, CVE-2020-6491, CVE-2020-6493, CVE-2020-6494,
CVE-2020-6495, CVE-2020-6496, CVE-2020-6497, and CVE-2020-6498.

* gnu/packages/patches/ungoogled-chromium-system-jsoncpp.patch,
gnu/packages/patches/ungoogled-chromium-system-zlib.patch: New files.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
* gnu/packages/chromium.scm (%preserved-third-party-files): Adjust for 83.
(%chromium-version): Set to 83.0.4103.106.
(%ungoogled-revision): Set to f08ce8b3f1300ef0750b5d6bf967b9cbbfd9a56d.
(%gentoo-revision, %gentoo-patches, %debian-patches): New variables.
(gentoo-patch, debian-patch): New procedures.
(%chromium-origin, %ungoogled-origin): Update hashes.
(ungoogled-chromium-source): Don't apply patches from %DEBIAN-ORIGIN, but take
%GENTOO-PATCHES, %DEBIAN-PATCHES, and the local patch files.
(ungoogled-chromium)[arguments]: Remove "enable_swiftshader=false" from
 #:configure-flags.  Add "icu_use_data_file=false".  Set CFLAGS in phase.
Remove obsolete substitution.  Adjust install phase to install .so files for
ANGLE and Swiftshader.
[native-inputs]: Change from CLANG-9 to CLANG-10.
[inputs]: Replace ICU4C with ICU4C-67.
(ungoogled-chromium/wayland): Remove obsolete substitution.  Add
"ozone_platform_x11=true" in #:configure-flags.
 2020-06-22 17:16:39 +02:00
Marius Bakke 8169cc736a
gnu: icu4c: Add 67.1. 
* gnu/packages/icu4c.scm (icu4c-67): New public variable.
 2020-06-22 17:16:39 +02:00
Marius Bakke acac3b94d7
gnu: ungoogled-chromium: Specify CPE name. 
* gnu/packages/chromium.scm (ungoogled-chromium)[properties]: Add CPE-NAME.
 2020-06-22 17:16:39 +02:00
Marius Bakke cafc5f8927
gnu: ungoogled-chromium: Remove non-free file. 
* gnu/packages/chromium.scm (ungoogled-chromium-source): Remove (unused) SVG
file that is licensed under a NoDerivatives license.
 2020-06-22 17:16:39 +02:00
Marius Bakke 3d5a217d5e
gnu: ungoogled-chromium: Build with ffmpeg@4.2. 
Fixes <https://bugs.gnu.org/41987>.
Reported by Jonathan Brielmaier <jonathan.brielmaier@web.de>.

* gnu/packages/video.scm (ffmpeg-4.2): New public variable.
* gnu/packages/chromium.scm (ungoogled-chromium)[inputs]: Change from FFMPEG
to FFMPEG-4.2.
 2020-06-22 17:16:38 +02:00
Marius Bakke 402d03751c
gnu: ffmpeg: Enable rav1e on x86_64 only. 
Fixes <https://bugs.gnu.org/41993>.
Reported by Kurt I <gitlabcanada@runbox.com>.

* gnu/packages/video.scm (ffmpeg)[inputs]: Conditionally add RAV1E.
[arguments]: Adjust #:configure-flags accordingly.
 2020-06-22 17:16:38 +02:00
Mathieu Othacehe 1cb9effc3e
system: image: Remove "image-root" derivation when building ISO. 
The "image-root" derivation output is used as a temporary directory that is
passed to GNU Xorriso later on. By merging the creation of this directory and
the production of an ISO image, we can get rid of the derivation.

* gnu/system/image.scm (system-iso9660-image): Merge "image-root" and
"iso9660-image" derivations so that we spare an extra derivation.
 2020-06-22 17:07:22 +02:00
Mathieu Othacehe 0919d6148f
gnu: xl2tpd: Fix build. 
* gnu/packages/vpn.scm (xl2tpd)[arguments]: Substitute hardcoded pppd path
instead of trying to set CFLAGS variable.
 2020-06-22 16:48:58 +02:00
Pierre Langlois 6e31d6f3c4
gnu: python-plotly: Update to 4.8.1. 
But keep version 2.4.1 around for packages that still need it and for python2
support.

* gnu/packages/graph.scm (python-plotly): Update to 4.8.1.
[source]: Use git-fetch so that tests are also included.
[arguments]: Enable tests.
[home-page]: Follow redirect.
(python-plotly-2.4.1): New variable.
(python2-plotly): Inherit from python-plotly-2.4.1.
* gnu/packages/bioinformatics.scm (python-deeptools)[native-inputs]: Depend on
python-plotly-2.4.1.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-06-22 15:44:16 +02:00
Pierre Langlois 3417a25156
gnu: Add python-xarray. 
From 27ec21904f769c1e8114f767972d9037e1e9f68a Mon Sep 17 00:00:00 2001
From: Pierre Langlois <pierre.langlois@gmx.com>
Date: Thu, 18 Jun 2020 00:58:02 +0200
Subject: [PATCH 4/5] gnu: Add python-xarray.

* gnu/package/python-science.scm (python-xarray): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-06-22 15:44:14 +02:00
Pierre Langlois 7fd33283df
gnu: Add python-retrying. 
* gnu/packages/python-xyz.scm (python-retrying): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-06-22 15:44:12 +02:00
Pierre Langlois 20b545f768
gnu: python-pandas: Update to 1.0.5. 
But also keep version 0.25.3 around for packages requiring an earlier
versions, as well as version 0.24.2 for a version with python2.

* gnu/packages/python-science.scm (python-pandas): Update to 1.0.5.
[arguments]: Adapt 'patch-which phase.  Add new 'prepare-x phase.  Do not
delete tests that depend on "moto", they are skipped automatically.
[propagated-inputs]: Add python-jinja2.
[inputs]: Add xsel and xclip.
[native-inputs]: Add xorg-server-for-tests so we can test clipboard support.
(python-pandas-0.24): New variable.
(python2-pandas): Inherit from python-pandas-0.25.
* gnu/packages/bioinformatics.scm (python-biom-format)[propagated-inputs]:
Switch to python-pandas-0.25.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-06-22 15:44:08 +02:00
Pierre Langlois 3a79adab41
gnu: deeptools: Deprecate in favor of python-deeptools. 
And make sure python-deeptools's tests are running.

* gnu/packages/bioinformatics.scm (python-deeptools): Fetch source using git.
[native-inputs]: Add python-mock and python-nose.
(deeptools): Mark as deprecated.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-06-22 15:43:59 +02:00
Ludovic Courtès 955caaab26
self: Build with Guile 3.0.3. 
* gnu/packages/guile.scm (guile-3.0/libgc-7): Inherit from GUILE-3.0.3.
 2020-06-22 15:42:56 +02:00
Ludovic Courtès fe5de925aa
deduplicate: Avoid traversing directories twice. 
Until now, we'd call (nar-sha256 file) unconditionally.  Thus, if FILE
was a directory, we would traverse it for no reason, and then call
'deduplicate' on FILE, which would again traverse it.

This change also removes redundant (mkdir-p store) calls from the loop,
and avoids 'lstat' calls by using 'scandir*'.

* guix/store/deduplication.scm (deduplicate): Add named loop.  Move
'mkdir-p' outside the loop.  Use 'scandir*' instead of 'scandir'.  Do
not call 'nar-sha256' when FILE has type 'directory.
 2020-06-22 15:42:55 +02:00
Ludovic Courtès a0d419e639
compile: Build gnu/{packages,tests}/* with '-O1'. 
* guix/build/compile.scm (optimization-options): Use '-O1' for the
simple case.
 2020-06-22 15:42:55 +02:00
Pierre Neidhardt a0dccc71a6
gnu: emacs-helm: Update to 3.6.3. 
* gnu/packages/emacs-xyz.scm (emacs-helm): Update to 3.6.3.
 2020-06-22 15:05:46 +02:00
Pierre Neidhardt 561aeefb0b
gnu: emacs-helm-fish-completion: Update to 0.5. 
* gnu/packages/emacs-xyz.scm (emacs-helm-fish-completion): Update to 0.5.
 2020-06-22 15:01:09 +02:00
Guillaume Le Vaillant 69b82c6078
gnu: js8call: Fix build. 
* gnu/packages/radio.scm (js8call)[inputs]: Use regular hamlib.
 2020-06-22 14:50:50 +02:00
Guillaume Le Vaillant 09e27115d6
gnu: wsjtx: Update to 2.2.1. 
* gnu/packages/radio.scm (wsjtx-hamlib): Update to 2.2.1.
  [arguments]: Add a 'fix-tests' phase.
  (wsjtx): Update to 2.2.1.
 2020-06-22 14:50:50 +02:00
Guillaume Le Vaillant 0213f0940e
gnu: qgis: Disable some failing tests. 
* gnu/packages/geo.scm (qgis)[arguments]: Disable a few more failing tests.
 2020-06-22 14:50:50 +02:00
Ricardo Wurmus c89afe7516
gnu: Add r-rgreat. 
* gnu/packages/bioconductor.scm (r-rgreat): New variable.
 2020-06-22 14:39:03 +02:00
Efraim Flashner 277ac1f242
gnu: rust-libc-0.2: Don't skip build. 
* gnu/packages/crates-io.scm (rust-libc-0.2)[arguments]: Don't skip
build.
 2020-06-22 14:15:34 +03:00
Efraim Flashner a1b79c09ee
gnu: rust-libc-0.2: Update to 0.2.71. 
* gnu/packages/crates-io.scm (rust-libc-0.2): Update to 0.2.71.
 2020-06-22 14:15:34 +03:00
Efraim Flashner a56305539f
gnu: rust-rayon-1.3: Rename to rust-rayon-1. 
* gnu/packages/crates-io.scm (rust-rayon-1.3): Rename to rust-rayon-1.
(rust-criterion-0.3, rust-criterion-0.2, rust-gimli-0.18,
rust-hashbrown-0.5, rust-indexmap-1.3, rust-jpeg-decoder-0.1,
rust-nasm-rs-0.1, rust-scroll-0.9, rust-syn-1.0, rust-syn-0.15)
[arguments]: Adjust accordingly.
* gnu/packages/gnome.scm (librsvg-next)[arguments]: Same.
* gnu/packages/rust-apps.scm (tokei)[arguments]: Same.
* gnu/packages/video.scm (rav1e)[arguments]: Same.
 2020-06-22 14:15:34 +03:00
Efraim Flashner 6c2189c858
gnu: Remove rust-rayon-1.1. 
* gnu/packages/crates-io.scm (rust-rayon-1.1): Remove variable.
(rust-criterion-0.2, rust-gimli-0.18, rust-hashbrown-0.5,
rust-jpeg-decoder-0.1, rust-scroll-0.9, rust-syn-0.15)
[arguments]: Replace rust-rayon-1.1 with 1.3.
 2020-06-22 14:15:34 +03:00
Efraim Flashner 8781c8edd2
gnu: rust-rayon-core-1.7: Rename to rust-rayon-core-1. 
* gnu/packages/crates-io.scm (rust-rayon-core-1.7): Rename to
rust-rayon-core-1.
(rust-criterion-0.2, rust-rayon-1.3, rust-rayon-1.1, rust-rayon-0.8)
[arguments]: Adjust accordingly.
 2020-06-22 14:15:34 +03:00
Efraim Flashner 4f76fbfcd9
gnu: Remove rust-rayon-core-1.5. 
* gnu/packages/crates-io.scm (rust-rayon-core-1.5): Remove variable.
(rust-criterion-0.2, rust-rayon-1.1) [arguments]: Replace
rust-rayon-core-1.5 with 1.7.
 2020-06-22 14:15:33 +03:00
Efraim Flashner df4d2ddaee
gnu: sequoia: Fix typos. 
* gnu/packages/sequoia.scm (sequoia)[arguments]: Move unquote next to
the expression it applies to.
 2020-06-22 14:15:33 +03:00
Efraim Flashner 6cd7b35544
gnu: rust-regex-1.3: Rename to rust-regex-1. 
* gnu/packages/crates-io.scm (rust-regex-1.3): Rename to rust-regex-1.
(rust-ansi-term-0.12, rust-bindgen-0.52, rust-bindgen-0.51,
rust-bindgen-0.50, rust-bindgen-0.37, rust-bindgen-0.49, rust-clap-2,
rust-compiletest-rs-0.3, rust-console-0.9, rust-console-0.7,
rust-docopt-1.1, rust-env-logger-0.7, rust-env-logger-0.6,
rust-env-logger-0.5, rust-gimli-0.18, rust-globset-0.4,
rust-grep-cli-0.1, rust-grep-matcher-0.1, rust-grep-regex-0.1,
rust-grep-searcher-0.1, rust-ignore-0.4, rust-lalrpop-0.17,
rust-lalrpop-util-0.17, rust-locale-config-0.3, rust-localeconfig-0.2,
rust-nom-5, rust-nom-4.2, rust-once-cell-1.2, rust-proptest-0.9,
rust-proptest-0.8, rust-pulldown-cmark-0.4, rust-regex-automata-0.1,
rust-rusqlite-0.19, rust-scan-fmt-0.2, rust-syn-1.0, rust-syn-0.15,
rust-ucd-parse-0.1, rust-version-sync-0.8) [arguments]: Adjust accordingly.
* gnu/packages/gnome.scm (librsvg-next)[arguments]: Same.
* gnu/packages/rust-apps.scm (fd, ripgrep, tokei, rust-cargo-c)
[arguments]: Same.
* gnu/packages/sequoia.scm (sequoia)[arguments]: Same.
 2020-06-22 14:15:33 +03:00
Efraim Flashner 9c13497df4
gnu: Remove rust-regex-1.1. 
* gnu/packages/crates-io.scm (rust-regex-1.1): Remove variable.
(rust-bindgen-0.50, rust-bindgen-0.49, rust-clap-2,
rust-compiletest-rs-0.2, rust-console-0.7, rust-docopt-1.1,
rust-env-logger-0.7, rust-env-logger-0.6, rust-env-logger-0.5,
rust-gimli-0.18, rust-globset-0.4, rust-grep-cli-0.1,
rust-grep-matcher-0.1, rust-grep-regex-0.1, rust-grep-searcher-0.1,
rust-ignore-0.4, rust-nom-5, rust-nom-4.2, rust-once-cell-1.2,
rust-proptest-0.9, rust-proptest-0.8, rust-pulldown-cmark-0.4,
rust-regex-automata-0.1, rust-rusqlite-0.19, rust-syn-0.15,
rust-ucd-parse-0.1, rust-version-sync-0.8) [arguments]: Replace
rust-regex-1.1 with 1.3.
* gnu/packages/rust-apps.scm (ripgrep)[arguments]: Same.
 2020-06-22 14:15:33 +03:00
Efraim Flashner 80cfe5458c
gnu: Add rust-once-cell-0.1. 
* gnu/packages/crates-io.scm (rust-once-cell-0.1): New variable.
 2020-06-22 14:15:33 +03:00