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2017-08-09gnu: r-wgcna: Update to 1.61....* gnu/packages/bioinformatics.scm (r-wgcna): Update to 1.61. [propagated-inputs]: Add r-rcpp, r-robust, r-survival. Ricardo Wurmus
2017-08-09gnu: Add r-robust....* gnu/packages/statistics.scm (r-robust): New variable. Ricardo Wurmus
2017-08-09gnu: Add r-fit-models....* gnu/packages/statistics.scm (r-fit-models): New variable. Ricardo Wurmus
2017-08-09gnu: Add r-rrcov....* gnu/packages/statistics.scm (r-rrcov): New variable. Ricardo Wurmus
2017-08-09gnu: Add r-pcapp....* gnu/packages/statistics.scm (r-pcapp): New variable. Ricardo Wurmus
2017-08-09gnu: r-gdtools: Update to 0.1.5....* gnu/packages/statistics.scm (r-gdtools): Update to 0.1.5. Ricardo Wurmus
2017-08-09gnu: r-ggbeeswarm: Update to 0.6.0....* gnu/packages/statistics.scm (r-ggbeeswarm): Update to 0.6.0. Ricardo Wurmus
2017-08-09gnu: icecat: Add more fixes from upstream mozilla-esr52....* gnu/packages/gnuzilla.scm (icecat)[source]: Add fixes for CVE-2017-7802, CVE-2017-7803, CVE-2017-7807, and the remaining 6 out of 23 changesets for CVE-2017-7779. Mark H Weaver
2017-08-09gnu: icecat: Rename patches to reflect CVE assignments....Document that our existing patches include fixes for CVE-2017-7753, CVE-2017-7784, CVE-2017-7786, CVE-2017-7787, CVE-2017-7791, CVE-2017-7792, CVE-2017-7798, CVE-2017-7798, CVE-2017-7800, CVE-2017-7801, and 17 out of 23 changesets for CVE-2017-7779. * gnu/packages/gnuzilla.scm (icecat)[source]: Rename patches to reflect CVE assignments. Mark H Weaver
2017-08-09gnu: gnurl: Update to 7.55.0....* gnu/packages/gnunet.scm (gnurl): Update to 7.55.0. Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr> ng0
2017-08-09gnu: virt-manager: Update to 1.4.2....* gnu/packages/virtualization.scm (virt-manager): Update to 1.4.2. Tobias Geerinckx-Rice
2017-08-09gnu: libgdata: Disable failing tests....* gnu/packages/gnome.scm (libgdata)[arguments]: Add ‘disable-failing-tests’ phase. Tobias Geerinckx-Rice
2017-08-09gnu: Add reference to (gnu packages graph)....This is a follow-up to 1738138cb3a48ed2f55c59c8d7c6ce12a4c4dcb3. Ricardo Wurmus
2017-08-09gnu: r-igraph: Move to (gnu packages graph)....* gnu/packages/statistics.scm (r-igraph): Move from here... * gnu/packages/graph.scm (r-igraph): ...to here. Ricardo Wurmus
2017-08-09gnu: Add python-igraph....* gnu/packages/graph.scm (python-igraph): New variable. Ricardo Wurmus
2017-08-09gnu: Add igraph....* gnu/packages/graph.scm: New file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add it. Ricardo Wurmus
2017-08-09gnu: viewnior: Don't build icon-theme.cache....* gnu/packages/image-viewers.scm (viewnior)[arguments]: Add phase to disable building the icon-theme.cache. Efraim Flashner
2017-08-09gnu: googletest: Build shared libraries....* gnu/packages/check.scm (googletest)[arguments]: Pass "-DBUILD_SHARED_LIBS=ON" in #:configure-flags. Manolis Ragkousis
2017-08-09gnu: Add ois....* gnu/packages/game-development.scm (ois): New variable. Manolis Ragkousis
2017-08-09gnu: dealii: Update to 8.5.0....* gnu/packages/maths.scm (dealii): Update to 8.5.0. [arguments]: Delete 'hint-example-prefix phase, which would need adjusting for this version. Users can use e.g. 'export DEAL_II_DIR=$GUIX_ENVIRONMENT'. Adjust configuration flags. Eric Bavier
2017-08-09gnu: stress-make: Patch default shell....* gnu/packages/debug.scm (stress-make)[arguments]: Add 'set-default-shell phase. Eric Bavier
2017-08-09gnu: suitesparse: Update to 4.5.5....* gnu/packages/maths.scm (suitesparse): Update to 4.5.5. [source]: Add 'modules' and 'snippet' field to remove bundled source. [arguments]: Remove 'prepare-out' phase. Adjust #:make-flags for metis. Make build parallel, since it now appears to be safe. [inputs]: Add metis. Eric Bavier
2017-08-09gnu: suitesparse: Use modify-phases....* gnu/packages/maths.scm (suitesparse)[arguments]: Use modify-phases. Eric Bavier
2017-08-09gnu: petsc, slepc: Use 'parallel-job-count'....* gnu/packages/maths.scm (petsc, slepc)[arguments]: Set #:make-flags to override default unlimited '-j'. (petsc)[arguments]: Scrub build machine cores from installed files in 'clean-local-references' phase. Eric Bavier
2017-08-09gnu: slepc: Update to 3.7.4....* gnu/packages/maths.scm (slepc): Update to 3.7.4. [source]: Use direct source link. Remove 'file-name' field. Eric Bavier
2017-08-09gnu: petsc: Update to 3.7.6....* gnu/packages/maths.scm (petsc): Update to 3.7.6. Eric Bavier
2017-08-09gnu: epiphany: Update to 3.24.3....* gnu/packages/gnome.scm (epiphany): Update to 3.24.3. Tobias Geerinckx-Rice
2017-08-09gnu: tracker: Update to 1.12.2....* gnu/packages/gnome.scm (tracker): Update to 1.12.2. Tobias Geerinckx-Rice
2017-08-09gnu: gnome-online-accounts: Update to 3.24.2....* gnu/packages/gnome.scm (gnome-online-accounts): Update to 3.24.2. Tobias Geerinckx-Rice
2017-08-09gnu: mutter: Update to 3.24.4....* gnu/packages/gnome.scm (mutter): Update to 3.24.4. Tobias Geerinckx-Rice
2017-08-09gnu: gedit: Support gspell....* gnu/packages/gnome.scm (gedit)[arguments]: Remove #:configure-flags. [inputs]: Add gspell. Tobias Geerinckx-Rice
2017-08-09gnu: gedit: Update to 3.22.1....* gnu/packages/gnome.scm (gedit): Update to 3.22.1. Tobias Geerinckx-Rice
2017-08-09gnu: gspell: Propagate enchant dependency....* gnu/packages/gnome.scm (gspell)[inputs]: Move enchant from here... [propagated-inputs]: ...to here. Tobias Geerinckx-Rice
2017-08-09gnu: gspell: Order inputs alphabetically....* gnu/packages/gnome.scm (gspell)[inputs, native-inputs]: Re-order. Tobias Geerinckx-Rice
2017-08-09gnu: gnumeric: Update to 1.12.35....* gnu/packages/gnome.scm (gnumeric): Update to 1.12.35. Tobias Geerinckx-Rice
2017-08-09gnu: brasero: Update to 3.12.2....* gnu/packages/gnome.scm (brasero): Update to 3.12.2. Tobias Geerinckx-Rice
2017-08-09gnu: Use HTTPS for gnome.org and subdomains....* gnu/packages/fonts.scm (font-bitstream-vera)[home-page]: Use HTTPS. * gnu/packages/glib.scm (glib)[home-page]: Likewise. * gnu/packages/gnome.scm (gcr, libgnome-keyring, gnome-keyring, evince) (gnome-icon-theme, libgsf, gnome-mime-data, vala, vte, python2-rsvg) (glib-networking, gnome-settings-daemon, libchamplain, grilo, grilo-plugins) (gjs, zenity, mutter, network-manager, network-manager-applet, gdm) [home-page]: Likewise. * gnu/packages/gtk.scm (gtk-engines, murrine)[home-page]: Likewise. Tobias Geerinckx-Rice
2017-08-08gnu: 0ad: Update to 0.0.22-alpha....* gnu/packages/games.scm (0ad-data, 0ad): Update to 0.0.22-alpha. Christopher Baines
2017-08-08services: herd: Add a stop-service procedure....* gnu/services/herd.scm (stop-service): New procedure. Christopher Baines
2017-08-08services: herd: Fix matching ok responses from shepherd service....Previously the match expression case for a successful response (where error is #f) required that the result component contained a list with a single element. As far as I see when looking at the responses from the shepherd, this is not normally the case. Therefore, to avoid treating successful responses as errors, make the match requirement more permissive, accepting any value. * gnu/services/herd.scm (invoke-action): Change match condition for ok responses. Christopher Baines
2017-08-08gnu: babl: Update to 0.1.28....* gnu/packages/gimp.scm (babl): Update to 0.1.28. Efraim Flashner
2017-08-08gnu: gegl: Use 'modify-phases' syntax....* gnu/packages/gimp.scm (gegl)[arguments]: Use the 'modify-phases' syntax. Efraim Flashner
2017-08-08gnu: gegl: Fix building on aarch64....* gnu/packages/gimp.scm (gegl)[arguments]: Add '-lm' configure-flag. Efraim Flashner
2017-08-08gnu: ruby-activesupport: Update to 5.1.3....* gnu/packages/ruby.scm (ruby-activesupport): Update to 5.1.3. Ben Woodcroft
2017-08-08gnu: pciutils: Update to 3.5.5....* gnu/packages/pciutils.scm (pciutils): Update to 3.5.5. Tobias Geerinckx-Rice
2017-08-08gnu: hunspell: Update to 1.6.1....* gnu/packages/libreoffice.scm (hunspell): Update to 1.6.1. [native-inputs]: Add autoconf, automake, and libtool. [arguments]: Add ‘bootstrap’ phase. Tobias Geerinckx-Rice
2017-08-08gnu: hunspell: Update home page....* gnu/packages/libreoffice.scm (hunspell)[home-page]: Update it. Tobias Geerinckx-Rice
2017-08-08gnu: aspell-dict-en: Update to 2017.01.22-0....Add missing copyright line for 2016. * gnu/packages/aspell.scm (aspell-dict-en): Update to 2017.01.22-0. Tobias Geerinckx-Rice
2017-08-08gnu: moreutils: Update to 0.61....* gnu/packages/moreutils.scm (moreutils): Update to 0.61. Tobias Geerinckx-Rice
2017-08-08gnu: sudo: Use ‘modify-phases’ syntax....* gnu/packages/admin.scm (sudo)[arguments]: Use ‘modify-phases’. Tobias Geerinckx-Rice