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* gnu: letsencrypt and acme: Update to 0.1.1.•••These packages should be updated together. * gnu/packages/tls.scm (letsencrypt): Update to 0.1.1. [source]: Use pypi-uri. * gnu/packages/tls.scm (acme): Update to 0.1.1. [source]: Use pypi-uri. Leo Famulari2015-12-211-8/+6
* gnu: ffmpeg: Update to 2.8.4.•••* gnu/packages/video.scm (ffmpeg): Update to 2.8.4. Efraim Flashner2015-12-211-2/+2
* doc: Be more explicit in example of file-systems configuration.•••* gnu/system/examples/bare-bones.tmpl (file-systems): Change device label. * gnu/system/examples/desktop.tmpl (file-systems): Likewise. Leo Famulari2015-12-212-5/+5
* doc: Explain significance of partition labels.•••* doc/guix.texi (Preparing for Installation): Point out relationship between partition labels and the file-system configuration. Leo Famulari2015-12-211-0/+8
* gnu: grub: Add fix for CVE-2015-8730.•••* gnu/packages/patches/grub-CVE-2015-8370.patch: New file. * gnu-system.am (dist_patch_DATA): Register patch. * gnu/packages/grub.scm: Apply patch. Leo Famulari2015-12-213-1/+49
* gnu: Add GenomicRanges.•••* gnu/packages/bioinformatics.scm (r-genomicranges): New variable. Ricardo Wurmus2015-12-211-0/+28
* gnu: Add XVector.•••* gnu/packages/bioinformatics.scm (r-xvector): New variable. Ricardo Wurmus2015-12-211-0/+37
* gnu: Add GenomeInfoDb.•••* gnu/packages/bioinformatics.scm (r-genomeinfodb): New variable. Ricardo Wurmus2015-12-211-0/+27
* gnu: Add IRanges.•••* gnu/packages/bioinformatics.scm (r-iranges): New variable. Ricardo Wurmus2015-12-211-0/+30
* gnu: Add S4Vectors.•••* gnu/packages/bioinformatics.scm (r-s4vectors): New variable. Ricardo Wurmus2015-12-211-0/+28
* gnu: Add BiocGenerics.•••* gnu/packages/bioinformatics.scm (r-biocgenerics): New variable. Ricardo Wurmus2015-12-211-0/+21
* gnu: Add r-acsnminer.•••* gnu/packages/bioinformatics.scm (r-acsnminer): New variable. Ricardo Wurmus2015-12-211-0/+26
* gnu: Add r-gridextra.•••* gnu/packages/statistics.scm (r-gridextra): New variable. Ricardo Wurmus2015-12-211-0/+25
* gnu: Add r-gtable.•••* gnu/packages/statistics.scm (r-gtable): New variable. Ricardo Wurmus2015-12-211-0/+19
* gnu: Add r-rmarkdown.•••* gnu/packages/statistics.scm (r-rmarkdown): New variable. * gnu/packages/haskell.scm: Do not select libxml2 from the xml module to prevent circular package module imports. Ricardo Wurmus2015-12-211-0/+27
* gnu: Add r-catools.•••* gnu/packages/statistics.scm (r-catools): New variable. Ricardo Wurmus2015-12-211-0/+23
* gnu: Add r-bitops.•••* gnu/packages/statistics.scm (r-bitops): New variable. Ricardo Wurmus2015-12-211-0/+18
* gnu: Add AdaptiveSparsity.•••* gnu/packages/machine-learning.scm (r-adaptivesparsity): New variable. Ricardo Wurmus2015-12-211-0/+33
* gnu: Add r-rcpparmadillo.•••* gnu/packages/maths.scm (armadillo-for-rcpparmadillo): New variable. * gnu/packages/statistics.scm (r-rcpparmadillo): New variable. Ricardo Wurmus2015-12-212-0/+54
* gnu: Add armadillo.•••* gnu/packages/maths.scm (armadillo): New variable. Ricardo Wurmus2015-12-211-0/+29
* doc: Fix outdated claim about CRAN importer.•••* doc/guix.texi: The CRAN importer no longer extracts information from the HTML package description but from the package's DESCRIPTION file. Ricardo Wurmus2015-12-211-1/+1
* import: Drop empty list items.•••* guix/import/cran.scm (listify): Remove empty strings from result list. Ricardo Wurmus2015-12-211-3/+6
* http-client: Support basic authentication.•••* guix/http-client.scm (http-fetch): Add Authorization header to request when the URI contains userinfo. Ricardo Wurmus2015-12-211-3/+12
* gnu: Add libgit2.•••* gnu/packages/version-control.scm (libgit2): New variable. Ricardo Wurmus2015-12-211-0/+45
* gnu: mafft: Update to 7.267.•••* gnu/packages/bioinformatics.scm (mafft): Update to 7.267. [arguments]: Don't include mafft-homologs manpage. [inputs]: Add gawk and grep. [propagated-inputs]: Add coreutils. Ben Woodcroft2015-12-211-3/+20
* gnu: rxvt-unicode: Install the terminal capability data.•••This provides the necessary terminal capability data, which are required by ncurses-based applications. * gnu/packages/xdisorg.scm (rxvt-unicode)[native-inputs]: Add ncurses. [arguments]: Set the destination of the terminfo files. [native-search-path]: New field. Make them automatically available to the user. Mathieu Lirzin2015-12-211-12/+23
* gnu: msmtp: Update to 1.6.3.•••* gnu/packages/mail.scm (msmtp): Update to 1.6.3. [inputs]: Add libsecret. Efraim Flashner2015-12-211-2/+3
* gnu: claws-mail: Update to 3.13.1.•••* gnu/packages/mail.scm (claws-mail): Update to 3.13.1. Efraim Flashner2015-12-211-2/+3
* gnu: python-cython: Update to 0.23.4.•••* gnu/packages/python.scm (python-cython): Update to 0.23.4. Efraim Flashner2015-12-211-4/+3
* gnu: ruby: Update to 2.2.4.•••This version fixes CVE-2015-7551. * gnu/packages/ruby.scm (ruby): Update to 2.2.4. David Thompson2015-12-201-2/+2
* lint: The CPE name of GRUB is "grub2".•••Reported by Leo Famulari. * guix/scripts/lint.scm (package-name->cpe-name): Add "grub". Ludovic Courtès2015-12-201-0/+1
* packages: Remove now redundant graph procedures.•••These procedures are now redundant with those in (guix graph) and are no longer used since commit a51cbecb. * gnu/packages.scm (vhash-refq, package-dependencies) (package-direct-dependents, package-transitive-dependents) (package-covering-dependents): Remove. Ludovic Courtès2015-12-201-61/+0
* profiles: Honor search paths of propagated inputs.•••Fixes <http://bugs.gnu.org/22073>. Reported by Federico Beffa <beffa@ieee.org>. * guix/profiles.scm (package->manifest-entry): Use 'package-transitive-native-search-paths' when computing 'search-paths' field. * tests/profiles.scm ("package->manifest-entry, search paths"): New test. Ludovic Courtès2015-12-202-1/+10
* packages: Add 'package-transitive-native-search-paths'.•••* guix/packages.scm (package-transitive-native-search-paths): New procedure. * tests/packages.scm ("package-transitive-native-search-paths"): New test. Ludovic Courtès2015-12-202-0/+33
* gnu: offlineimap: Update to 6.6.0.•••* gnu/packages/mail.scm (offlineimap): Update to 6.6.0. Efraim Flashner2015-12-201-2/+2
* gnu: gnupg: Update to 1.4.20.•••* gnu/packages/gnupg.scm (gnupg-1): Update to 1.4.20. Efraim Flashner2015-12-201-2/+2
* gnu: Add gnome-shell.•••* gnu/packages/gnome.scm (gnome-shell): New variable. 宋文武2015-12-201-0/+82
* gnu: Add gnome-control-center.•••* gnu/packages/gnome.scm (gnome-control-center): New variable. 宋文武2015-12-201-0/+73
* gnu: Add gnome-bluetooth.•••* gnu/packages/gnome.scm (gnome-bluetooth): New variable. 宋文武2015-12-201-0/+33
* gnu: Add libgtop.•••* gnu/packages/gnome.scm (libgtop): New variable. 宋文武2015-12-201-0/+27
* gnu: Add colord-gtk.•••* gnu/packages/freedesktop.scm (colord-gtk): New variable. 宋文武2015-12-201-0/+31
* gnu: Add telepathy-logger.•••* gnu/packages/freedesktop.scm (telepathy-logger): New variable. 宋文武2015-12-201-1/+41
* gnu: tilda: Update to 1.3.1.•••* gnu/packages/terminals.scm (tilda): Update to 1.3.1. Efraim Flashner2015-12-201-2/+2
* gnu: Add tlsdate.•••* gnu/packages/ntp.scm (tlsdate): New variable. Ludovic Courtès2015-12-191-0/+43
* gnu: mpv: Update to 0.14.0.•••* gnu/packages/video.scm (mpv): Update to 0.14.0. 宋文武2015-12-191-2/+2
* gnu: mpv: Fix build by using pkg-config for smbclient.•••This is a followup to commit 710964d. * gnu/packages/video.scm (mpv)[arguments]: Remove 'patch-wscript' phase. 宋文武2015-12-191-8/+1
* gnu: agg: Update URLs.•••* gnu/packages/graphics.scm (agg)[source, home-page]: Add up-to-date URLs. Ludovic Courtès2015-12-191-3/+13
* gnu: Use #:prefix when importing (guix licenses).•••This works around a problem with #:hide, whereby Guile would report 'zlib', 'openssl', and/or 'expat as colliding bindings at run time despite the #:hide. * gnu/packages/linux.scm: Use #:prefix license for (guix licenses). * gnu/packages/haskell.scm: Likewise. Ludovic Courtès2015-12-192-286/+282
* gnu: Do not #:select from (gnu packages …) modules.•••This is to avoid <http://bugs.gnu.org/15540>. * gnu/packages/bittorrent.scm: Do not #:select from (gnu packages compression). * gnu/packages/dictionaries.scm: Likewise. * gnu/packages/disk.scm: Likewise. * gnu/packages/gimp.scm: Likewise. * gnu/packages/haskell.scm: Likewise. Ludovic Courtès2015-12-195-11/+7
* gnu: key-mon: Remove unnecessary propagated inputs.•••* gnu/packages/key-mon.scm (key-mon)[propagated-inputs]: Rename to... [inputs]: ... this. Propagated was unnecessary since the 'key-mon' program is wrapped. Ludovic Courtès2015-12-181-1/+1