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2019-07-08gnu: r-xbioc: Update to 0.1.16-1.6ff0670.Tobias Geerinckx-Rice
This is needed to deprecate r-biocinstaller, which is no longer distributed. * gnu/packages/bioinformatics.scm (r-xbioc): Update to 0.1.16-1.6ff0670. [propagated-inputs]: Replace deprecated r-biocinstaller with r-biocmanager.
2019-07-08gnu: cmh: Fix build.Tobias Geerinckx-Rice
This follows up on commit 1de48e8f8afec23847458c533d2fae0d69d8942a. * gnu/packages/algebra.scm (fplll-4-cmh): New variable. (cmh)[inputs]: Use it.
2019-07-08gnu: libomp: Download over HTTPS.Tobias Geerinckx-Rice
* gnu/packages/llvm.scm (libomp)[source]: Use HTTPS.
2019-07-08gnu: libomp: Fix source hash.Tobias Geerinckx-Rice
This is a follow-up to commit c5296e205b65a9b53553cf45be2ab223d5e82df5, which updated llvm. * gnu/packages/llvm.scm (libomp)[source]: Fix hash.
2019-07-08gnu: r-txdb-mmusculus-ucsc-mm10-knowngene: Update to 3.4.7.Tobias Geerinckx-Rice
* gnu/packages/bioconductor.scm (r-txdb-mmusculus-ucsc-mm10-knowngene): Update to 3.4.7.
2019-07-08gnu: Add emacs-polymode-org.Joseph LaFreniere
* gnu/packages/emacs-xyz.scm (emacs-polymode-org): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-08gnu: emacs-polymode: Update to 0.2.Joseph LaFreniere
* gnu/packages/emacs-xyz.scm (emacs-polymode): Update to 0.2. [source]: Change URL of Git repository to Polymode GitHub project. [homepage]: Change URL to polymode GitHub project. [description]: Realign text. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-08gnu: i3blocks: Update to ec050e7.ison
* gnu/packages/wm.scm (i3blocks): Update to ec050e7. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-08gnu: dosfstools: Enable compat symlinks.Pierre Langlois
Enable compatibility symlinks to provide commands such as `mkfs.vfat`. * gnu/packages/disk.scm (dosfstools)[arguments]: Pass "--enable-compat-symlinks" to configure. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-08gnu: wireservice: New wireservice-package macro.Pierre Langlois
Replace the parent 'base-package' variable with a 'wireservice-package' macro that includes all common package fields. * gnu/packages/wireservice.scm (base-package): Delete. (wireservice-package): New macro. (python-leather, python-agate, python-agate-sql, python-agate-dbf, python-agate-excel): Use wireservice-package. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-08gnu: gobject-introspection: Update absolute-shlib-path.patch.Christopher Baines
Incorporate some changes from nixpkgs to the gobject-introspection package patches. This is motivated by looking at issues with libsoup and lollypop. These changes mean that the share/gir-1.0/Soup-2.4.gir file within libsoup (and the corresponding binary typelib) references libsoup-2.4.so.1 with an absolute filename, whereas previously, the filename wasn't absolute. With an absolute filename in the typelib, loading libsoup from lollypop should work. * gnu/packages/patches/gobject-introspection-absolute-shlib-path.patch: Incorporate changes from nixpkgs.
2019-07-08gnu: gama: Update to 2.06.Efraim Flashner
* gnu/packages/gps.scm (gama): Update to 2.06.
2019-07-07gnu: diffoscope: Update to 116.Vagrant Cascadian
* gnu/packages/package-management (diffoscope): Update to 116.
2019-07-08gnu: python-pytest: Update to 4.4.2.Marius Bakke
This is necessary to fix a test failure on 32-bit platforms in 4.4.1. * gnu/packages/check.scm (python-pytest): Update to 4.4.2.
2019-07-08gnu: python-pluggy: Update to 0.11.0.Marius Bakke
* gnu/packages/python-xyz.scm (python-pluggy): Update to 0.11.0.
2019-07-08gnu: webkitgtk: Build with Python 3.Marius Bakke
* gnu/packages/webkit.scm (webkitgtk)[native-inputs]: Change PYTHON-2 to PYTHON-WRAPPER.
2019-07-07gnu: jalv: Remove GCC5 workaround.Marius Bakke
* gnu/packages/audio.scm (jalv)[arguments]: Remove <#:phases>.
2019-07-07gnu: mesa: Use the "release" Meson build type.Marius Bakke
* gnu/packages/gl.scm (mesa)[arguments]: Add <#:build-type>.
2019-07-07gnu: doxygen: Build with Python 3.Marius Bakke
* gnu/packages/documentation.scm (doxygen)[native-inputs]: Change PYTHON-2 to PYTHON.
2019-07-07gnu: doxygen: Don't build against special Flex variant.Marius Bakke
* gnu/packages/documentation.scm (doxygen)[native-inputs]: Change FLEX-2.6.1 to FLEX.
2019-07-07gnu: libinput: Use the 'release' Meson build type.Marius Bakke
* gnu/packages/freedesktop.scm (libinput)[arguments]: Add <#:build-type>.
2019-07-07gnu: libpsl: Python is a native input.Marius Bakke
* gnu/packages/web.scm (libpsl)[inputs]: Move PYTHON-WRAPPER ... [native-inputs]: ... here.
2019-07-07gnu: graphite2: Build against Python 3.Marius Bakke
Previously, the Python tests were skipped, because they require Python 3. * gnu/packages/fontutils.scm (graphite2)[arguments]: New field. [native-inputs]: Change PYTHON-2 and PYTHON2-FONTTOOLS to PYTHON and PYTHON-FONTTOOLS.
2019-07-07gnu: zziplib: Don't run failing tests.Marius Bakke
* gnu/packages/compression.scm (zziplib)[arguments]: Set <#:test-target>.
2019-07-07gnu: zziplib: Don't use unstable tarball.Marius Bakke
* gnu/packages/compression.scm (zziplib)[source]: Change to GIT-FETCH. [argumnents]: New field.
2019-07-07gnu: libpsl: Build against Python 3.Marius Bakke
* gnu/packages/web.scm (libpsl)[inputs]: Change PYTHON-2 to PYTHON-WRAPPER.
2019-07-07gnu: ninja: Python is a regular input.Marius Bakke
Ninja uses Python at run time, so it must not be a native input. * gnu/packages/ninja.scm (ninja)[native-inputs]: Change to ... [inputs]: ... this.
2019-07-07gnu: ninja: Build against Python 3.Marius Bakke
* gnu/packages/ninja.scm (ninja)[native-inputs]: Change PYTHON-2 to PYTHON-WRAPPER.
2019-07-07gnu: libevent: Use Python 3 for event_rpcgen.py.Marius Bakke
* gnu/packages/libevent.scm (libevent)[inputs]: Change PYTHON-2 to PYTHON-WRAPPER.
2019-07-07gnu: itstool: Update to 2.0.6.Marius Bakke
* gnu/packages/glib.scm (itstool): Update to 2.0.6. [inputs]: Change PYTHON2-LIBXML and PYTHON-2 to PYTHON-LIBXML and PYTHON. * gnu/packages/gnome.scm (totem)[inputs]: Change PYTHON-2 to PYTHON.
2019-07-07gnu: cURL: Build against Python 3.Marius Bakke
* gnu/packages/curl.scm (curl)[native-inputs]: Change PYTHON-2 to PYTHON-WRAPPER.
2019-07-07gnu: icu4c: Enable tests on i686.Marius Bakke
* gnu/packages/icu4c.scm (icu4c)[arguments]: Don't override <#:tests?>.
2019-07-07gnu: icu4c: Use 'python-minimal' for tests.Marius Bakke
* gnu/packages/icu4c.scm (icu4c)[native-inputs]: Change PYTHON to PYTHON-MINIMAL.
2019-07-07gnu: Python: Avoid needless reference on coreutils.Marius Bakke
* gnu/packages/python.scm (python-2.7)[arguments]: Pass "INSTALL" and "MKDIR_P" in <#:configure-flags>.
2019-07-07gnu: commencement: Fix Python build on non-x86 platforms.Marius Bakke
* gnu/packages/commencement.scm (python-boot0)[version, source]: Downgrade to 3.5.7. [arguments]: Remove <#:make-flags>. Add <#:phases>. [native-inputs]: Remove artifical dependency on PKG-CONFIG.
2019-07-07gnu: Add csvkit.Pierre Langlois
* gnu/packages/wireservice.scm (csvkit): New variable. * gnu/packages/patches/csvkit-fix-tests.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: Add python-agate-excel.Pierre Langlois
* gnu/packages/wireservice.scm (python-agate-excel): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: Add python-agate-dbf.Pierre Langlois
* gnu/packages/wireservice.scm (python-agate-dbf): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: Add python-agate-sql.Pierre Langlois
* gnu/packages/wireservice.scm (python-agate-sql): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: Add python-agate.Pierre Langlois
* gnu/packages/wireservice.scm (python-agate): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: Add python-leather.Pierre Langlois
* gnu/packages/wireservice.scm: New file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add it. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: Add python-dbfread.Pierre Langlois
* gnu/packages/python-xyz.scm (python-dbfread): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: Add python-crate.Pierre Langlois
* gnu/packages/databases.scm (python-crate): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: Add python-pytimeparse.Pierre Langlois
* gnu/packages/time.scm (python-pytimeparse): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: Add python-slugify.Pierre Langlois
* gnu/packages/python-web.scm (python-slugify): New variable. * gnu/packages/patches/python-slugify-depend-on-unidecode.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: Add emacs-moe-theme-el.Brian Leung
* gnu/packages/emacs-xyz.scm (emacs-moe-theme-el): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: emacs-goto-chg: Update to 1.7.3-1.1829a13.Brian Leung
* gnu/packages/emacs-xyz.scm (emacs-goto-chg): Update to 1.7.3-1.1829a13. [origin]: Use GIT-FETCH and GIT-REFERENCE. [home-page]: Update. [inputs]: Add emacs-undo-tree. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: emacs-hydra: Update to 0.15.0.Brian Leung
* gnu/packages/emacs-xyz.scm (emacs-hydra): Update to 0.15.0. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: Add emacs-lpy.Brian Leung
* gnu/packages/emacs-xyz.scm (emacs-lpy): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-07-07gnu: emacs-md4rd: Update to 0.3.1.Brian Leung
* gnu/packages/emacs-xyz.scm (emacs-md4rd): Update to 0.3.1. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
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