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* gnu: pt-scotch, pt-scotch32: Add Open MPI setup phase.Ludovic Courtès2018-11-23
| | | | | | * gnu/packages/maths.scm (pt-scotch)[arguments]: Use 'invoke' instead of 'system*'. Add 'mpi-setup' phase. (pt-scotch32)[arguments]: Likewise.
* gnu: pigx-scrnaseq: Use latest snakemake.Ricardo Wurmus2018-11-23
| | | | | * gnu/packages/bioinformatics.scm (pigx-scrnaseq)[inputs]: Replace snakemake-4 with snakemake.
* gnu: pigx-bsseq: Use latest snakemake.Ricardo Wurmus2018-11-23
| | | | | * gnu/packages/bioinformatics.scm (pigx-bsseq)[inputs]: Replace snakemake-4 with snakemake.
* gnu: pigx-chipseq: Use latest snakemake.Ricardo Wurmus2018-11-23
| | | | | * gnu/packages/bioinformatics.scm (pigx-chipseq)[inputs]: Replace snakemake-4 with snakemake.
* gnu: python-gevent: Update to 1.3.7.Ricardo Wurmus2018-11-23
| | | | | | * gnu/packages/python.scm (python-gevent): Update to 1.3.7. [arguments]: Find headers for greenlet in phase "do-not-use-bundled-sources". [propagated-inputs]: Add python-objgraph.
* gnu: Add python-objgraph.Ricardo Wurmus2018-11-23
| | | | * gnu/packages/python.scm (python-objgraph): New variable.
* gnu: python-loompy: Remove python-typing.Ricardo Wurmus2018-11-23
| | | | | * gnu/packages/bioinformatics.scm (python-loompy)[propagated-inputs]: Remove python-typing.
* gnu: podofo: Add patch to fix build.Ricardo Wurmus2018-11-22
| | | | | | * gnu/packages/patches/podofo-cmake-3.12.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/pdf.scm (podofo)[source]: Add patch.
* gnu: jalv: Build with python-2.Efraim Flashner2018-11-22
| | | | * gnu/packages/audio.scm (jalv)[arguments]: Build with python-2.
* gnu: python-scikit-learn: Update to 0.20.1.Marius Bakke2018-11-22
| | | | | | | | | | | * gnu/packages/patches/python-scikit-learn-fix-test-non-determinism.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. * gnu/packages/machine-learning.scm (python-scikit-learn): Update to 0.20.1. [source](patches): Remove. [arguments]: Skip network tests with pytest instead of deleting files. Make sure $HOME is writable. (python2-scikit-learn): Rewrite in terms of PACKAGE-WITH-PYTHON2.
* Merge branch 'master' into core-updatesMarius Bakke2018-11-22
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| * linux-initrd: 'expression->initrd' returns the complete file name.Ludovic Courtès2018-11-21
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Previously 'expression->initrd' would return the directory that contains the 'initrd' file; now it returns the complete file name for that file. * gnu/system/linux-initrd.scm (expression->initrd)[builder]: Change output file name to "initrd.cpio.gz". Tail-call 'file-append' to return the complete file name. * gnu/system.scm (operating-system-initrd-file): Remove 'file-append' call. * gnu/build/linux-initrd.scm (write-cpio-archive): Check whether OUTPUT already has the ".gz" suffix; rename if before invoking GZIP if it does, and otherwise after. * gnu/system/vm.scm (expression->derivation-in-linux-vm)[builder]: Do not append "/initrd" to #$initrd.
| * guix system: Fix 'init' again.Ludovic Courtès2018-11-21
| | | | | | | | | | | | | | | | | | Fixes a regression introduced in 52ee4479ef26826a53b9929cd00ca7738be687b1, whereby 'install' would now be passed a procedure instead of a lowerable object. * guix/scripts/system.scm (perform-action): Pass BOOTLOADER-SCRIPT as the #:bootloader-installer argument of 'install'.
| * gnu: mbedtls-apache: Update to 2.14.0.Marius Bakke2018-11-21
| | | | | | | | * gnu/packages/tls.scm (mbedtls-apache): Update to 2.14.0.
| * gnu: termite: Update to 14.Marius Bakke2018-11-21
| | | | | | | | * gnu/packages/terminals.scm (termite): Update to 14.
| * gnu: vte-ng: Update to 0.54.2.a.Marius Bakke2018-11-21
| | | | | | | | * gnu/packages/gnome.scm (vte-ng): Update to 0.54.2.a.
| * gnu: vte-ng: Fetch source using git.Marius Bakke2018-11-21
| | | | | | | | * gnu/packages/gnome.scm (vte-ng)[source]: Rewrite in terms of GIT-FETCH.
| * gnu: vte-ng: Add a home page.Marius Bakke2018-11-21
| | | | | | | | * gnu/packages/gnome.scm (vte-ng)[home-page]: New field.
| * gnu: python-numpy: Update to 1.14.6.Marius Bakke2018-11-21
| | | | | | | | * gnu/packages/python.scm (python-numpy): Update to 1.14.6.
| * gnu: webkitgtk: Update to 2.22.4.Marius Bakke2018-11-21
| | | | | | | | * gnu/packages/webkit.scm (webkitgtk-2.22): Update to 2.22.4.
| * gnu: git: Update to 2.19.2.Marius Bakke2018-11-21
| | | | | | | | * gnu/packages/version-control.scm (git): Update to 2.19.2.
| * gnu: feh: Update to 3.1.Marius Bakke2018-11-21
| | | | | | | | * gnu/packages/image-viewers.scm (feh): Update to 3.1.
| * gnu: teeworlds: Update to 0.7.0 [fixes CVE-2018-18541].Alex Vong2018-11-22
| | | | | | | | | | | | | | | | | | * gnu/packages/games.scm (teeworlds): Update to 0.7.0. [source]: Switch to git-fetch. Remove all bundled libraries except md5. [arguments]: Adjust accordingly. [inputs]: Use sdl2 instead of sdl and python-wrapper instead of python-2. Add json-parser and pnglite. * gnu/packages/patches/teeworlds-use-latest-wavpack.patch: Update it.
| * gnu: bam: Update to 0.5.1.Alex Vong2018-11-22
| | | | | | | | | | | | | | * gnu/packages/build-tools.scm (bam): Update to 0.5.1. [source]: Switch to git-fetch. [arguments]: Use newly provided Makefile. [inputs]: Add lua.
| * gnu: Add json-parser.Alex Vong2018-11-22
| | | | | | | | * gnu/packages/web.scm (json-parser): New variable.
| * gnu: Add pnglite.Alex Vong2018-11-22
| | | | | | | | * gnu/packages/image.scm (pnglite): New variable.
* | gnu: python-tblib: Fix test failure with Python 3.7.Marius Bakke2018-11-22
| | | | | | | | * gnu/packages/python.scm (python-tblib)[arguments]: Add 'adjust-tests' phase.
* | gnu: python-numpy: Update to 1.15.4.Marius Bakke2018-11-21
| | | | | | | | * gnu/packages/python.scm (python-numpy): Update to 1.15.4.
* | Merge remote-tracking branch 'origin/master' into core-updatesEfraim Flashner2018-11-21
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| * gnu: python-waf: Use a proper directory structure.Efraim Flashner2018-11-21
| | | | | | | | | | | | | | | | | | Fixes <https://bugs.gnu.org/25634>. * gnu/packages/python.scm (python-waf): Replace custom 'install phase to install "waf" binary into the bin directory. Remove the 'wrap phase. * gnu/packages/video.scm (mpv)[arguments]: Adjust the 'setup-waf phase accordingly.
| * gnu: font-ubuntu: Update url.Jan Nieuwenhuizen2018-11-21
| | | | | | | | * gnu/packages/fonts.scm (font-ubuntu): Use new url, update hash.
| * describe: Add profile option.Oleg Pykhalov2018-11-21
| | | | | | | | | | | | | | * guix/scripts/describe.scm (%options): Add profile option. (show-help): Document this. (display-checkout-info): Check for profile argument. * doc/guix.texi (Invoking guix describe): Document this.
| * describe: Fix 'format' option.Oleg Pykhalov2018-11-21
| | | | | | | | | | | | Fix ‘guix describe’ ignores ‘--format=FORMAT’ option. * guix/scripts/describe.scm (%options): Fix 'format' option.
| * gnu: Add python-wikidata.swedebugia2018-11-21
| | | | | | | | | | | | * gnu/packages/python.scm (python-wikidata): New variable. Co-authored-by: Ludovic Courtès <ludo@gnu.org>
| * build: Add missing Clojure modules to the distribution.Ludovic Courtès2018-11-21
| | | | | | | | | | * Makefile.am (MODULES): Add guix/build-system/clojure.scm and guix/build/clojure-build-system.scm
| * gnu: thermald: Clean up package definition.Efraim Flashner2018-11-21
| | | | | | | | | | * gnu/packages/admin.scm (thermald)[arguments]: Remove redundant 'bootstrap phase. Remove unnecessary udev configure flag.
| * gnu: thermald: Don't use unstable tarball.Efraim Flashner2018-11-21
| | | | | | | | | | * gnu/packages/admin.scm (thermald)[source]: Download source using git-fetch.
| * gnu: emacs-elpy: Update to 1.26.0.Maxim Cournoyer2018-11-20
| | | | | | | | * gnu/packages/emacs.scm (emacs-elpy): Update to 1.26.0.
| * gnu: u-boot-pine64-plus: Refactor package definition.Vagrant Cascadian2018-11-20
| | | | | | | | | | | | | | * gnu/packages/bootloaders.scm (make-u-boot-sunxi64-package): New procedure. (u-boot-pine64-plus): Use it. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
| * gnu: arm-trusted-firmware-pine64-plus: Rename variable to ↵Vagrant Cascadian2018-11-20
| | | | | | | | | | | | | | | | | | | | arm-trusted-firmware-sun50i-a64. * gnu/packages/firmware (arm-trusted-firmware-pine64-plus): Rename to... (arm-trusted-firmware-sun50i-a64): ...this. * gnu/packages/bootloaders (u-boot-pine64-plus)[native-inputs]: Use it. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
| * gnu: arm-trusted-firmware-pine64-plus: Update to 2.0-1.cabe0a3.Vagrant Cascadian2018-11-20
| | | | | | | | | | | | | | | | | | * gnu/packages/firmware.scm (arm-trusted-firmware-pine64-plus): Use platform name from upstream ("sun50i_a64"). [version]: Update to 2.0-1.cabe0a3, [source](uri): Use upstream git repository. Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
| * gnu: Add python-django-debug-toolbar.Christopher Baines2018-11-20
| | | | | | | | | | * gnu/packages/django.scm (python-django-debug-toolbar, python2-django-debug-toolbar): New variables.
| * gnu: Add python-django-jinja.Christopher Baines2018-11-20
| | | | | | | | | | * gnu/packages/django.scm (python-django-jinja, python2-django-jinja): New variables.
| * gnu: Add python-django-pipeline.Christopher Baines2018-11-20
| | | | | | | | | | * gnu/packages/django.scm (python-django-pipeline, python2-django-pipeline): New variables.
| * gnu: Add python-slimit.Christopher Baines2018-11-20
| | | | | | | | * gnu/packages/python-web.scm (python-slimit, python2-slimit): New variables.
| * gnu: Add python-jsmin.Christopher Baines2018-11-20
| | | | | | | | * gnu/packages/python-web.scm (python-jsmin, python2-jsmin): New variables.
| * gnu: cabextract: Update to 1.9.Kei Kebreau2018-11-20
| | | | | | | | | | | | * gnu/packages/compression.scm (cabextract): Update to 1.9. [arguments]: Add phase "unpack-libmspack". [inputs]: Add libmspack-source.
| * gnu: libmspack: Update to 0.9.1.Kei Kebreau2018-11-20
| | | | | | | | * gnu/packages/compression.scm (libmspack): Update to 0.9.1.
| * gnu: java-jansi-native: Add "mips64el-linux" case.Ludovic Courtès2018-11-20
| | | | | | | | | | * gnu/packages/java.scm (java-jansi-native)[arguments]: Add "mips64el-linux" in 'match' clause.
| * Revert "gnu: ccl: Include x86-headers and remove missing "contrib" folder."Ludovic Courtès2018-11-20
| | | | | | | | | | This reverts commit d22ba64276c0bbacb77d0670635f67f053a16c6b, which broke evaluations for armhf-linux.
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