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* gnu: libndp: Update to 1.6 [fixes CVE-2016-3698].•••* gnu/packages/networking.scm (libndp): Update to 1.6. Leo Famulari2016-05-17
* gnu: Add emacs-zenburn-theme.•••* gnu/packages/emacs.scm (emacs-zenburn-theme): New variable. Signed-off-by: Alex Kost <alezost@gmail.com> humanitiesNerd2016-05-17
* gnu: gd: Fix-CVE-2016-3074.•••* gnu/packages/patches/gd-CVE-2016-3074.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/gd.scm (gd)[source]: Use it. Leo Famulari2016-05-17
* gnu: gd: Specify 'cpe-name'.•••* gnu/packages/gd.scm (gd)[properties]: New field. Ludovic Courtès2016-05-17
* lint: Honor 'cpe-name' and 'cpe-version' package properties.•••* guix/scripts/lint.scm (package-name->cpe-name): Remove. (package-vulnerabilities): Honor 'cpe-name' and 'cpe-version' properties. * gnu/packages/grub.scm (grub)[properties]: New field. * gnu/packages/gnuzilla.scm (icecat)[properties]: Add 'cpe-name' and 'cpe-version'. * doc/guix.texi (Invoking guix lint): Mention 'cpe-name'. Ludovic Courtès2016-05-17
* gnu: emacs-constants: Remove old patch.•••* gnu/packages/patches/emacs-constants-lisp-like.patch: Remove it. * gnu/local.mk (dist_patch_DATA): Remove entry for above patch. Federico Beffa2016-05-17
* gnu: emacs-constants: Update to 2.6.•••* gnu/packages/emacs.scm (emacs-constants): Change to versioned repository and update to 2.6. Federico Beffa2016-05-17
* gnu: sortmerna: Update to 2.1b.•••* gnu/packages/bioinformatics.scm (sortmerna): Update to 2.1b. [inputs]: New field. Ben Woodcroft2016-05-17
* gnu: vsearch: Update to 1.11.1.•••* gnu/packages/bioinformatics.scm (vsearch): Update to 1.11.1. Ben Woodcroft2016-05-17
* gnu: diamond: Update to 0.8.1.•••* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.1. [source]: Remove 'snippet'. [build-system]: Use cmake-build-system. [arguments]: Remove modifications to phases. [native-inputs]: Remove field. [inputs]: Remove 'boost'. Ben Woodcroft2016-05-17
* gnu: emacs-constants: Factorize home-page in source URL.•••* gnu/packages/emacs.scm (emacs-constants): Move 'home-page' above. Use it in 'uri'. Ludovic Courtès2016-05-17
* gnu: 'uncompressed-file-fetch' no longer depends on gzip.•••* gnu/packages/emacs.scm (uncompressed-file-fetch): Remove dependency on GZIP. Ludovic Courtès2016-05-17
* gnu: cflow: Update to 1.5.•••* gnu/packages/code.scm (cflow): Update to 1.5. Efraim Flashner2016-05-17
* gnu: Add geiser-next.•••Also, I previously committed to this repository in 2015; add self to copyright headers for that year too. * gnu/packages/emacs.scm (geiser-next): New variable. Christopher Allan Webber2016-05-16
* gnu: r-zlibbioc: Update to 1.18.0.•••* gnu/packages/bioinformatics.scm (r-zlibbioc): Update to 1.18.0. Ricardo Wurmus2016-05-16
* gnu: r-motifrg: Update to 1.16.0.•••* gnu/packages/bioinformatics.scm (r-motifrg): Update to 1.16.0. Ricardo Wurmus2016-05-16
* gnu: r-seqlogo: Update to 1.38.0.•••* gnu/packages/bioinformatics.scm (r-seqlogo): Update to 1.38.0. Ricardo Wurmus2016-05-16
* gnu: r-genomation: Update to 1.4.0.•••* gnu/packages/bioinformatics.scm (r-genomation): Update to 1.4.0. Ricardo Wurmus2016-05-16
* gnu: r-seqpattern: Update to 1.4.0.•••* gnu/packages/bioinformatics.scm (r-seqpattern): Update to 1.4.0. Ricardo Wurmus2016-05-16
* gnu: r-impute: Update to 1.46.0.•••* gnu/packages/bioinformatics.scm (r-impute): Update to 1.46.0. Ricardo Wurmus2016-05-16
* gnu: r-bsgenome: Update to 1.40.0.•••* gnu/packages/bioinformatics.scm (r-bsgenome): Update to 1.40.0. Ricardo Wurmus2016-05-16
* gnu: r-topgo: Update to 2.24.0.•••* gnu/packages/bioinformatics.scm (r-topgo): Update to 2.24.0. [propagated-inputs]: Add r-matrixstats. Ricardo Wurmus2016-05-16
* gnu: r-graph: Update to 1.50.0.•••* gnu/packages/bioinformatics.scm (r-graph): Update to 1.50.0. Ricardo Wurmus2016-05-16
* gnu: r-genomicfeatures: Update to 1.24.0.•••* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.24.0. Ricardo Wurmus2016-05-16
* gnu: r-rtracklayer: Update to 1.32.0.•••* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.32.0. Ricardo Wurmus2016-05-16
* gnu: r-genomicalignments: Update to 1.8.0.•••* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.8.0. Ricardo Wurmus2016-05-16
* gnu: r-summarizedexperiment: Update to 1.2.0.•••* gnu/packages/bioinformatics.scm (r-summarizedexperiment): Update to 1.2.0. Ricardo Wurmus2016-05-16
* gnu: r-rsamtools: Update to 1.24.0.•••* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 1.24.0. Ricardo Wurmus2016-05-16
* gnu: r-biostrings: Update to 2.40.0.•••* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.40.0. Ricardo Wurmus2016-05-16
* gnu: r-biocparallel: Update to 1.6.0.•••* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.6.0. Ricardo Wurmus2016-05-16
* gnu: r-biomart: Update to 2.28.0.•••* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.28.0. Ricardo Wurmus2016-05-16
* gnu: r-annotationdbi: Update to 1.34.0.•••* gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.34.0. Ricardo Wurmus2016-05-16
* gnu: r-biobase: Update to 2.32.0.•••* gnu/packages/bioinformatics.scm (r-biobase): Update to 2.32.0. Ricardo Wurmus2016-05-16
* gnu: r-genomicranges: Update to 1.24.0.•••* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.24.0. Ricardo Wurmus2016-05-16
* gnu: r-xvector: Update to 0.12.0.•••* gnu/packages/bioinformatics.scm (r-xvector): Update to 0.12.0. Ricardo Wurmus2016-05-16
* gnu: r-variantannotation: Update to 1.18.0.•••* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.18.0. Ricardo Wurmus2016-05-16
* gnu: r-genomeinfodb: Update to 1.8.0.•••* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.8.0. Ricardo Wurmus2016-05-16
* gnu: r-iranges: Update to 2.6.0.•••* gnu/packages/bioinformatics (r-iranges): Update to 2.6.0. Ricardo Wurmus2016-05-16
* gnu: r-s4vectors: Update to 0.10.0.•••* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.10.0. Ricardo Wurmus2016-05-16
* gnu: r-dnacopy: Update to 1.46.0.•••* gnu/packages/bioinformatics.scm (r-dnacopy): Update to 1.46.0. Ricardo Wurmus2016-05-16
* gnu: r-biocgenerics: Update to 0.18.0.•••* gnu/packages/bioinformatics.scm (r-biocgenerics): Update to 0.18.0. Ricardo Wurmus2016-05-16
* gnu: imagemagick: Update to 6.9.4-1.•••* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.4-1. Leo Famulari2016-05-16
* gnu: libgit2: Update to 0.24.1.•••* gnu/packages/version-control.scm (libgit2): Update to 0.24.1. Efraim Flashner2016-05-16
* gnu: tmux: Update to 2.2.•••* gnu/packages/tmux.scm (tmux): Update to 2.2. Efraim Flashner2016-05-16
* gnu: Add ledger.•••* gnu/packages/finance.scm (ledger): New variable. Co-authored-by: Alex Kost <alezost@gmail.com> Alex Griffin2016-05-16
* gnu: Add utfcpp.•••* gnu/packages/textutils.scm (utfcpp): New variable. Signed-off-by: Alex Kost <alezost@gmail.com> Alex Griffin2016-05-16
* gnu: asymptote: Install Emacs data.•••* gnu/packages/plotutils.scm (asymptote)[arguments]: Add a phase to install Emacs-Lisp files in an appropriate place. Signed-off-by: Alex Kost <alezost@gmail.com> Nicolas Goaziou2016-05-16
* gnu: mu: Update to 0.9.16.•••* gnu/packages/mail.scm (%mu-gtester-patch): Remove. (mu): Update to 0.9.16. [source]: Remove 'patches'. Alex Kost2016-05-16
* gnu: mu: Install emacs autoloads.•••* gnu/packages/mail.scm (mu)[arguments]: Add 'install-emacs-autoloads' phase. Use appropriate modules and imported-modules. Alex Kost2016-05-16
* gnu: mu: Install emacs files in a proper place.•••* gnu/packages/mail.scm (mu)[arguments]: Add 'patch-configure.ac' phase to avoid adding "mu4e" sub-directory to 'lispdir' variable. Alex Kost2016-05-16
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