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* gnu: taxtastic: Add missing propagated-inputs.•••* gnu/packages/bioinformatics.scm (taxtastic)[propagated-inputs]: Add python-psycopg2, python-fastalite, python-pyyaml, python-six, python-jinja2, python-dendropy. Ben Woodcroft2018-07-29
* gnu: python-dendropy: Update to 4.4.0.•••* gnu/packages/bioinformatics.scm (python-dendropy, python2-dendropy): Update to 4.4.0. [source]: Use GitHub URI. Remove patch. [properties]: Remove field. (python2-dendropy)[arguments]: Run tests with setup.py. [native-inputs]: Remove 'python2-nose. * gnu/packages/patches/python-dendropy-fix-tests.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Delete it. Ben Woodcroft2018-07-29
* gnu: python2-psycopg2: Update to 2.7.5.•••* gnu/packages/bioinformatics.scm (python2-psycopg2): Update to 2.7.5. Ben Woodcroft2018-07-29
* gnu: Add python-fastalite.•••* gnu/packages/bioinformatics.scm (python-fastalite, python2-fastalite): New variables. Ben Woodcroft2018-07-29
* gnu: Add chroma.•••* gnu/packages/games.scm (chroma): New variable. Christopher Lemmer Webber2018-07-29
* gnu: linux-libre: Update to 4.17.11.•••* gnu/packages/linux.scm (%linux-libre-version): Update to 4.17.11. (%linux-libre-hash): Update hash. Mark H Weaver2018-07-29
* gnu: linux-libre@4.14: Update to 4.14.59.•••* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.59. (%linux-libre-4.14-hash): Update hash. Mark H Weaver2018-07-29
* gnu: linux-libre@4.9: Update to 4.9.116.•••* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.116. Mark H Weaver2018-07-29
* gnu: linux-libre@4.4: Update to 4.4.145.•••* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.145. Mark H Weaver2018-07-29
* gnu: clojure: Fix index generation.•••* gnu/packages/java.scm (clojure)[arguments]: Add phase 'fix-manifest-classpath to remove offending directory entry making indexing fail. Gábor Boskovits2018-07-29
* gnu: openlibm: Update to 0.6.0.•••* gnu/packages/maths.scm (openlibm): Update to 0.6.0. Marius Bakke2018-07-28
* gnu: glm: Update home page.•••* gnu/packages/maths.scm (glm)[home-page]: Use HTTPS. Marius Bakke2018-07-28
* gnu: glm: Update to 0.9.9.0.•••* gnu/packages/maths.scm (glm): Update to 0.9.9.0. [source](uri): Change to new download location. Marius Bakke2018-07-28
* gnu: libjpeg-turbo: Update license.•••* gnu/packages/image.scm (libjpeg-turbo)[license]: Add ZLIB. Marius Bakke2018-07-28
* gnu: libjpeg-turbo: Update to 2.0.0.•••* gnu/packages/image.scm (libjpeg-turbo): Update to 2.0.0. [build-system]: Change to CMAKE-BUILD-SYSTEM. [arguments]: Adjust accordingly. Marius Bakke2018-07-28
* gnu: accountsservice: Update to 0.6.50.•••* gnu/packages/freedesktop.scm (accountsservice): Update to 0.6.50. [arguments]: Add "--enable-elogind" and "--disable-systemd" to #:configure-flags. [inputs]: Add ELOGIND. Marius Bakke2018-07-28
* gnu: dconf: Update to 0.28.0.•••* gnu/packages/gnome.scm (dconf): Update to 0.28.0. [build-system]: Switch to MESON-BUILD-SYSTEM. [arguments]: Adjust accordingly. [native-inputs]: Add VALA and GLIB:BIN. Marius Bakke2018-07-28
* gnu: dconf: Update license.•••* gnu/packages/gnome.scm (dconf)[license]: Change from LGPL2.1 to LGPL2.1+. Marius Bakke2018-07-28
* gnu: dconf: Install GTK documentation.•••* gnu/packages/gnome.scm (dconf)[native-inputs]: Add GTK-DOC. [arguments]: Adjust #:configure-flags accordingly. Marius Bakke2018-07-28
* gnu: dconf: Adjust inputs and remove obsolete workaround.•••* gnu/packages/gnome.scm (dconf)[inputs]: Remove GLIB and LIBXML2. [propagated-inputs]: Add GLIB. [native-inputs]: Add LIBXML2. Remove INTLTOOL. [arguments]: Remove #:phases. Marius Bakke2018-07-28
* gnu: x265: Fix compilation on ARMv7.•••* gnu/packages/patches/x265-arm-asm-primitives.patch: New file. * gnu/packages/video.scm (x265)[sources](patches): Add it. * gnu/local.mk (dist_patch_DATA): Add it. Ludovic Courtès2018-07-28
* gnu: mariadb: Work around GCC ICE on armhf-linux.•••* gnu/packages/patches/mariadb-gcc-ice.patch: New file. * gnu/packages/databases.scm (mariadb)[arguments]: Conditionally add 'apply-patch' phase. [native-inputs]: Conditionally add "gcc-ice-patch" input. Ludovic Courtès2018-07-28
* gnu: allegro: Update to 5.2.4.0.•••* gnu/packages/game-development.scm (allegro): Update to 5.2.4.0. [source]: Update URL. Kei Kebreau2018-07-27
* gnu: gcc@8: Update to 8.2.0.•••* gnu/packages/gcc.scm (gcc-8): Update to 8.2.0. Ludovic Courtès2018-07-27
* gnu: Add font-blackfoundry-inria.•••* gnu/packages/fonts.scm (font-blackfoundry-inria): New file. Ludovic Courtès2018-07-27
* gnu: emacs-flycheck: Don't rely on pkg-info.el for 'flycheck-version'.•••* gnu/packages/emacs.scm (flycheck)[source]: Add 'modules' and 'snippet'. Ludovic Courtès2018-07-27
* gnu: pigx-scrnaseq: Disable another expensive test.•••* gnu/packages/bioinformatics.scm (pigx-scrnaseq)[arguments]: Disable multiqc test. Ricardo Wurmus2018-07-27
* gnu: Add snakemake-4.•••* gnu/packages/python.scm (snakemake-4): New variable. * gnu/packages/bioinformatics.scm (pigx-bsseq, pigx-rnaseq, pigx-scrnaseq, pigx-chipseq)[inputs]: Use it. Ricardo Wurmus2018-07-27
* gnu: snakemake: Add missing dependencies.•••* gnu/packages/python.scm (snakemake)[propagated-inputs]: Add python-datrie, python-docutils, python-jinja2, python-jsonschema, and python-networkx. Ricardo Wurmus2018-07-27
* gnu: Add python-datrie.•••* gnu/packages/python.scm (python-datrie): New variable. Ricardo Wurmus2018-07-27
* gnu: imagemagick: Update to 6.9.10-8.•••* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.10-8. Marius Bakke2018-07-27
* gnu: mbedtls-apache: Update to 2.7.5.•••* gnu/packages/tls.scm (mbedtls-apache): Update to 2.7.5. Marius Bakke2018-07-27
* gnu: snakemake: Update to 5.2.0.•••* gnu/packages/python.scm (snakemake): Update to 5.2.0. Ricardo Wurmus2018-07-27
* gnu: guile-sdl2: Update to 0.3.0.•••* gnu/packages/sdl.scm (guile-sdl2): Update to 0.3.0. [arguments]: Remove "patch-makefile" phase. Ricardo Wurmus2018-07-27
* gnu: tiled: Update to 1.1.6.•••* gnu/packages/game-development.scm (tiled): Update to 1.1.6. [arguments]: Substitute invoke for system*. Kei Kebreau2018-07-27
* gnu: python-xsge: Update to 2018.02.26.•••* gnu/packages/game-development.scm (python-xsge, python2-xsge): Update to 2018.02.26. [arguments]: Substitute invoke for system*. Kei Kebreau2018-07-26
* gnu: freeciv: Update to 2.6.0.•••* gnu/packages/games.scm (freeciv): Update to 2.6.0. Kei Kebreau2018-07-26
* gnu: ecryptfs-utils: Patch more hardcoded paths.•••* gnu/packages/linux.scm (ecryptfs-utils): [arguments]: Add an additional file to be patched that was missing in the last fix. Ecryptfs will now find the umount binary path as well as mount and others. Re-sort the list of files to be substituted. Signed-off-by: Leo Famulari <leo@famulari.name> Brendan Tildesley2018-07-26
* gnu: cabextract: Delete bundled libmspack.•••* gnu/packages/compression.scm (cabextract)[source](modules, snippet): New field. Marius Bakke2018-07-26
* gnu: cabextract: Update to 1.7.•••* gnu/packages/compression.scm (cabextract): Update to 1.7. Marius Bakke2018-07-26
* gnu: fuse: Update source hash.•••The fuse 2.9.8 tarball and signature was modified in place. Both are signed by the same key, at different dates, and the only differences are directory timestamps and a ChangeLog update. * gnu/packages/linux.scm (fuse)[source](sha256): Update. Marius Bakke2018-07-26
* gnu: make-u-boot-package: Don't install "sunxi-spl-with-ecc.bin".•••* gnu/packages/bootloaders.scm (make-u-boot-package)[arguments]<#:phases> [install]: Don't install "sunxi-spl-with-ecc.bin". Danny Milosavljevic2018-07-26
* gnu: Add ruby-net-scp.•••* gnu/packages/ruby.scm (ruby-net-scp): New variable. Danny Milosavljevic2018-07-26
* gnu: translate-shell: Fix .el install directory.•••* gnu/packages/dictionaries.scm (translate-shell)[arguments]: Change the install directory during the custom 'emacs-install phase to match with other emacs .el packages. Efraim Flashner2018-07-26
* gnu: java-picard: Fix manifest.•••* gnu/packages/bioinformatics.scm (java-picard)[arguments]: Adjust phase 'edit-classpath-in-manifest for the new manifest generation code. Gábor Boskovits2018-07-26
* gnu: python-qsintilla: Fix building.•••* gnu/packages/qt.scm (python-qscintilla)[arguments]: Extend custom 'configure phase to also patch the 'installed.txt' file. Efraim Flashner2018-07-26
* gnu: linux-libre: Update to 4.17.10.•••* gnu/packages/linux.scm (%linux-libre-version): Update to 4.17.10. (%linux-libre-hash): Update hash. Mark H Weaver2018-07-26
* gnu: linux-libre@4.14: Update to 4.14.58.•••* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.58. (%linux-libre-4.14-hash): Update hash. Mark H Weaver2018-07-26
* gnu: linux-libre@4.9: Update to 4.9.115.•••* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.115. Mark H Weaver2018-07-26
* gnu: linux-libre@4.4: Update to 4.4.144.•••* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.144. Mark H Weaver2018-07-26
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