jackhill/guix/guix.git
8 years agobuild: Use "%D%" in Makefile fragments.
Mathieu Lirzin [Tue, 24 May 2016 11:06:21 +0000 (13:06 +0200)]
build: Use "%D%" in Makefile fragments.

* doc/local.mk: Use "%D%" for the directory of the fragment relative to
the base 'Makefile.am'.
* emacs/local.mk: Likewise.
* gnu/local.mk: Likewise.
* nix/local.mk: Likewise.

8 years agoui: Let users report translation bugs.
Mathieu Lirzin [Mon, 16 May 2016 15:55:38 +0000 (17:55 +0200)]
ui: Let users report translation bugs.

* guix/ui.scm (show-bug-report-information): Add a comment for
translators.

8 years agognu: Add emacs-clojure-mode.
humanitiesNerd [Wed, 18 May 2016 13:41:47 +0000 (15:41 +0200)]
gnu: Add emacs-clojure-mode.

* gnu/packages/emacs.scm (emacs-clojure-mode): New variable.

Signed-off-by: Alex Kost <alezost@gmail.com>
8 years agognu: Use 'emacs-minimal' instead of 'emacs-no-x'.
Alex Kost [Wed, 11 May 2016 22:58:59 +0000 (01:58 +0300)]
gnu: Use 'emacs-minimal' instead of 'emacs-no-x'.

* gnu/packages/code.scm (cflow)[native-inputs]: Use 'emacs-minimal'
  instead of 'emacs-no-x'.
* gnu/packages/databases.scm (recutils): Likewise.
* gnu/packages/finance.scm (ledger): Likewise
* gnu/packages/idutils.scm (idutils): Likewise.
* gnu/packages/mail.scm (mu): Likewise.
* gnu/packages/ocaml.scm (proof-general): Likewise.
* gnu/packages/package-management.scm (guix-0.10.0): Likewise.
* gnu/packages/plotutils.scm (asymptote): Likewise.
* gnu/packages/scheme.scm (scmutils): Likewise.
* gnu/packages/version-control.scm (vc-dwim): Likewise.
* gnu/packages/emacs.scm (geiser): Likewise.
(paredit): Likewise.
(git-modes): Likewise.
(magit): Likewise.
(magit-svn): Likewise.
(haskell-mode): Likewise.
(let-alist): Likewise.
(emacs-w3m): Likewise.
(emacs-wget): Likewise.
(emms): Likewise.
(bbdb): Likewise.
(emacs-mmm-mode): Likewise.
(emacs-pdf-tools): Likewise.
(emacs-popup)[native-inputs]: Remove as it is not needed for
emacs-build-system.
(emacs-rfcview): Likewise.
(emacs-ffap-rfc-space): Likewise.

8 years agognu: Move emacs for building from inputs to native-inputs.
Alex Kost [Wed, 11 May 2016 22:53:02 +0000 (01:53 +0300)]
gnu: Move emacs for building from inputs to native-inputs.

* gnu/packages/emacs.scm (geiser): Move "emacs" from inputs to native-inputs.
(paredit): Likewise.
(haskell-mode): Likewise.
(emacs-w3m): Likewise.
(emacs-wget): Likewise.
* gnu/packages/mail.scm (mu): Likewise.
* gnu/packages/version-control.scm (vc-dwim): Likewise.

8 years agobuild-system/emacs: Use 'emacs-minimal' by default.
Alex Kost [Wed, 11 May 2016 21:41:12 +0000 (00:41 +0300)]
build-system/emacs: Use 'emacs-minimal' by default.

* guix/build-system/emacs.scm (default-emacs): Use 'emacs-minimal'.
* gnu/packages/emacs.scm (emacs-auctex): Use 'emacs'.

8 years agognu: Add emacs-minimal.
Alex Kost [Wed, 11 May 2016 20:25:29 +0000 (23:25 +0300)]
gnu: Add emacs-minimal.

* gnu/packages/emacs.scm (emacs-minimal): New variable.

8 years agognu: emacs: Remove *.elc and autoloads from the tarball.
Alex Kost [Thu, 19 May 2016 08:01:40 +0000 (11:01 +0300)]
gnu: emacs: Remove *.elc and autoloads from the tarball.

* gnu/packages/emacs.scm (emacs)[source]: Add 'snippet' to remove
  compiled and generated elisp files.

8 years agognu: enblend-enfuse: Update to 4.2.
Efraim Flashner [Tue, 24 May 2016 05:47:59 +0000 (08:47 +0300)]
gnu: enblend-enfuse: Update to 4.2.

* gnu/packages/photo.scm (enblend-enfuse): Update to 4.2.
[native-inputs]: Add help2man, texlive-minimal.

8 years agognu: grub: Re-enable test.
Leo Famulari [Fri, 4 Dec 2015 17:00:32 +0000 (12:00 -0500)]
gnu: grub: Re-enable test.

* gnu/packages/grub.scm (grub)[arguments]: Re-enable test.

8 years agograph: Add 'node-reachable-count'.
Ludovic Courtès [Mon, 23 May 2016 21:03:23 +0000 (23:03 +0200)]
graph: Add 'node-reachable-count'.

* guix/graph.scm (node-reachable-count): New procedure.
* tests/graph.scm ("node-reachable-count"): New test.

8 years agograph: Expose 'traverse/depth-first'.
Ludovic Courtès [Mon, 23 May 2016 20:31:59 +0000 (22:31 +0200)]
graph: Expose 'traverse/depth-first'.

* guix/graph.scm (traverse/depth-first): New procedure, based on code
formerly in 'node-transitive-edges'.
(node-transitive-edges): Rewrite in terms of it.

8 years agorefresh: Make 'list-dependents' a monadic procedure.
Ludovic Courtès [Mon, 23 May 2016 20:24:02 +0000 (22:24 +0200)]
refresh: Make 'list-dependents' a monadic procedure.

* guix/scripts/refresh.scm (list-dependents): Remove use of 'with-store'
and 'run-with-store'.
(guix-refresh): Wrap body in with-store/run-with-store.

8 years agognu: vdirsyncer: Update to 0.11.0.
Leo Famulari [Mon, 23 May 2016 17:21:49 +0000 (13:21 -0400)]
gnu: vdirsyncer: Update to 0.11.0.

* gnu/packages/dav.scm (vdirsyncer): Update to 0.11.0.

8 years agognu: git: Update to 2.8.3.
Leo Famulari [Fri, 6 May 2016 20:34:11 +0000 (16:34 -0400)]
gnu: git: Update to 2.8.3.

* gnu/packages/version-control.scm (git): Update to 2.8.3.
(git-manpages)[source]: Update hash.

8 years agognu: Add r-zoo.
Roel Janssen [Mon, 23 May 2016 09:09:13 +0000 (11:09 +0200)]
gnu: Add r-zoo.

* gnu/packages/statistics.scm (r-zoo): New variable.

Signed-off-by: Leo Famulari <leo@famulari.name>
8 years agognu: borg: Update to 1.0.3.
Leo Famulari [Mon, 23 May 2016 06:55:54 +0000 (02:55 -0400)]
gnu: borg: Update to 1.0.3.

* gnu/packages/backup.scm (borg): Update to 1.0.3.
[source]: Remove pypi-uri.

8 years agounion: Compare inode numbers in 'file=?'.
Ludovic Courtès [Mon, 23 May 2016 16:02:04 +0000 (18:02 +0200)]
union: Compare inode numbers in 'file=?'.

* guix/build/union.scm (file=?): Compare the inode of ST1 and ST2.

8 years agocve: Remove now unnecessary HTTP caching.
Ludovic Courtès [Mon, 23 May 2016 15:46:59 +0000 (17:46 +0200)]
cve: Remove now unnecessary HTTP caching.

* guix/cve.scm (call-with-cve-port): Use 'http-fetch' instead of
'http-fetch/cached'.

8 years agocve: Keep a summarized sexp in cache instead of the full XML.
Ludovic Courtès [Mon, 23 May 2016 15:42:32 +0000 (17:42 +0200)]
cve: Keep a summarized sexp in cache instead of the full XML.

This avoids ~20s of XML parsing when running 'guix lint -c cve'.

* guix/cve.scm (vulnerability->sexp, sexp->vulnerability)
(fetch-vulnerabilities): New procedures.
(current-vulnerabilities): Use 'fetch-vulnerabilities'.

8 years agognu: Add poppler-qt5.
Roel Janssen [Sun, 22 May 2016 23:47:11 +0000 (01:47 +0200)]
gnu: Add poppler-qt5.

* gnu/packages/pdf.scm (poppler-qt5): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
8 years agognu: Add slurm-drmaa.
Ricardo Wurmus [Thu, 12 May 2016 15:09:41 +0000 (17:09 +0200)]
gnu: Add slurm-drmaa.

* gnu/packages/parallel.scm (slurm-drmaa): New variable.

8 years agognu: Add ParDRe.
Ricardo Wurmus [Fri, 20 May 2016 14:09:59 +0000 (16:09 +0200)]
gnu: Add ParDRe.

* gnu/packages/bioinformatics.scm (pardre): New variable.

8 years agognu: gnu-pw-mgr: Update to 2.0.
Efraim Flashner [Sun, 22 May 2016 13:58:21 +0000 (16:58 +0300)]
gnu: gnu-pw-mgr: Update to 2.0.

* gnu/packages/gnu-pw-mgr.scm (gnu-pw-mgr): Update to 2.0.

8 years agognu: imagemagick: Update to 6.9.4-4.
Leo Famulari [Thu, 19 May 2016 03:16:51 +0000 (23:16 -0400)]
gnu: imagemagick: Update to 6.9.4-4.

* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.4-4.

8 years agognu: Add python2-rope.
Lukas Gradl [Sat, 21 May 2016 23:19:42 +0000 (18:19 -0500)]
gnu: Add python2-rope.

* gnu/packages/python.scm (python2-rope): New variable.

8 years agognu: Add gnome-calendar.
Kei Yamashita [Sun, 15 May 2016 01:27:08 +0000 (21:27 -0400)]
gnu: Add gnome-calendar.

* gnu/packages/gnome.scm (gnome-calendar): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
8 years agognu: Add envstore.
Matthew Jordan [Thu, 19 May 2016 18:10:40 +0000 (14:10 -0400)]
gnu: Add envstore.

* gnu/package/shellutils.scm: New file.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
8 years agognu: Add sicp.
Jan Nieuwenhuizen [Thu, 19 May 2016 21:50:09 +0000 (23:50 +0200)]
gnu: Add sicp.

* gnu/packages/scheme.scm (sicp): New variable.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>
8 years agognu: Add dia.
Roel Janssen [Thu, 19 May 2016 08:26:45 +0000 (10:26 +0200)]
gnu: Add dia.

* gnu/packages/gnome.scm (dia): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
8 years agobuild: Fix 'AM_V_at' typo.
Mathieu Lirzin [Thu, 12 May 2016 21:15:37 +0000 (23:15 +0200)]
build: Fix 'AM_V_at' typo.

* Makefile.am (hydra-jobs.scm): Fix 'AM_V_at' typo.

8 years agografts: Rename files whose name matches a graft.
Ludovic Courtès [Fri, 20 May 2016 20:14:46 +0000 (22:14 +0200)]
grafts: Rename files whose name matches a graft.

Fixes <http://bugs.gnu.org/23132>.
Reported by Mark H Weaver <mhw@netris.org>.

* guix/build/graft.scm (rename-matching-files): New procedure.
(rewrite-directory): Use it.
* tests/grafts.scm ("graft-derivation, renaming"): New test.

8 years agografts: Preserve empty directories when grafting.
Ludovic Courtès [Fri, 20 May 2016 20:11:56 +0000 (22:11 +0200)]
grafts: Preserve empty directories when grafting.

* guix/build/graft.scm (rewrite-directory)[rewrite-leaf]: Add case for
'directory.
Pass #:directories? #t to 'find-files'.

8 years agosubstitute: Gracefully handle invalid store file names.
Ludovic Courtès [Fri, 20 May 2016 15:18:58 +0000 (17:18 +0200)]
substitute: Gracefully handle invalid store file names.

Before, something like:

  echo have /gnu/foo | ./test-env guix substitute --query

would lead to an ugly backtrace.

* guix/scripts/substitute.scm (narinfo-cache-file): Call 'leave' when
'store-hash-part' returns #f.

8 years agograph: Allow store file names for 'derivation' and 'references' graphs.
Ludovic Courtès [Fri, 20 May 2016 15:07:23 +0000 (17:07 +0200)]
graph: Allow store file names for 'derivation' and 'references' graphs.

* guix/scripts/graph.scm (%derivation-node-type)[convert]: Add
'derivation-path?' and catch-all clauses.
(%reference-node-type)[convert]: Add 'store-path?' and catch-all
clauses.
(assert-package, nodes-from-package): New procedures.
(%package-node-type, %bag-node-type,%bag-with-origins-node-type)
(%bag-emerged-node-type): Add 'convert' field
(guix-graph): Rename 'packages' to 'items' and
allow 'store-path?' arguments.
* guix/graph.scm (<node-type>)[convert]: Adjust comment.
* doc/guix.texi (Invoking guix graph): Document it.

8 years agoderivations: 'derivation' sorts items in the resulting object.
Ludovic Courtès [Thu, 19 May 2016 21:27:48 +0000 (23:27 +0200)]
derivations: 'derivation' sorts items in the resulting object.

* guix/derivations.scm (derivation-input<?): New procedure.
(write-derivation)[coalesce-duplicate-inputs]: Remove.
Remove calls to 'sort'.
(coalesce-duplicate-inputs): New procedure.
(derivation-hash): Sort INPUTS and use 'coalesce-duplicate-inputs'.
(derivation)[input->derivation-input]
[coalesce-duplicate-inputs]: New procedures.
Sort OUTPUTS, INPUTS, and ENV-VARS.
* tests/derivations.scm ("read-derivation vs. derivation"): New test.

8 years agograph: Use absolute file name canonicalization.
Ludovic Courtès [Thu, 19 May 2016 21:24:50 +0000 (23:24 +0200)]
graph: Use absolute file name canonicalization.

* guix/scripts/graph.scm (guix-graph): Wrap in 'with-fluids'.

8 years agognu: linux-libre: Update to 4.5.5.
Mark H Weaver [Fri, 20 May 2016 22:17:12 +0000 (18:17 -0400)]
gnu: linux-libre: Update to 4.5.5.

* gnu/packages/linux.scm (linux-libre): Update to 4.5.5.

8 years agognu: linux-libre-4.4: Update to 4.4.11.
Mark H Weaver [Fri, 20 May 2016 22:15:51 +0000 (18:15 -0400)]
gnu: linux-libre-4.4: Update to 4.4.11.

* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.11.

8 years agoant-build-system: Add unpack phase.
Ricardo Wurmus [Tue, 10 May 2016 13:50:28 +0000 (15:50 +0200)]
ant-build-system: Add unpack phase.

* guix/build/ant-build-system.scm (unpack): New procedure.
(%standard-phases): Use it.

8 years agognu: Add default gcc-objc++.
Ricardo Wurmus [Mon, 16 May 2016 18:12:08 +0000 (20:12 +0200)]
gnu: Add default gcc-objc++.

* gnu/packages/gcc.scm (gcc-objc++): New variable.

8 years agognu: Add gcc-objc++-4.9.
Ricardo Wurmus [Mon, 16 May 2016 18:11:42 +0000 (20:11 +0200)]
gnu: Add gcc-objc++-4.9.

* gnu/packages/gcc.scm (gcc-objc++-4.9): New variable.

8 years agognu: Add default gcc-objc.
Ricardo Wurmus [Mon, 16 May 2016 18:11:19 +0000 (20:11 +0200)]
gnu: Add default gcc-objc.

* gnu/packages/gcc.scm (gcc-objc): New variable.

8 years agognu: Add gcc-objc-4.9.
Ricardo Wurmus [Mon, 16 May 2016 18:10:55 +0000 (20:10 +0200)]
gnu: Add gcc-objc-4.9.

* gnu/packages/gcc.scm (gcc-objc-4.9): New variable.

8 years agognu: r-rcpparmadillo: Update to 0.6.700.6.0.
Ricardo Wurmus [Fri, 20 May 2016 13:09:36 +0000 (15:09 +0200)]
gnu: r-rcpparmadillo: Update to 0.6.700.6.0.

* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.6.700.6.0.
* gnu/packages/maths.scm (armadillo-for-rcpparmadillo): Update to
6.700.6.

8 years agognu: armadillo: Update to 6.700.7.
Ricardo Wurmus [Fri, 20 May 2016 13:08:53 +0000 (15:08 +0200)]
gnu: armadillo: Update to 6.700.7.

* gnu/packages/maths.scm (armadillo): Update to 6.700.7.

8 years agognu: r-genomation: Update to 1.4.2.
Ricardo Wurmus [Fri, 20 May 2016 12:58:57 +0000 (14:58 +0200)]
gnu: r-genomation: Update to 1.4.2.

* gnu/packages/bioinformatics.scm (r-genomation): Update to 1.4.2.

8 years agognu: r-jsonlite: Update to 0.9.20.
Ricardo Wurmus [Fri, 20 May 2016 12:57:25 +0000 (14:57 +0200)]
gnu: r-jsonlite: Update to 0.9.20.

* gnu/packages/web.scm (r-jsonlite): Update to 0.9.20.

8 years agognu: r-plotly: Update to 3.6.0.
Ricardo Wurmus [Fri, 20 May 2016 12:56:50 +0000 (14:56 +0200)]
gnu: r-plotly: Update to 3.6.0.

* gnu/packages/statistics.scm (r-plotly): Update to 3.6.0.

8 years agognu: r-matrixstats: Update to 0.50.2.
Ricardo Wurmus [Fri, 20 May 2016 12:56:16 +0000 (14:56 +0200)]
gnu: r-matrixstats: Update to 0.50.2.

* gnu/packages/statistics.scm (r-matrixstats): Update to 0.50.2.

8 years agognu: r-r-rsp: Update to 0.30.0.
Ricardo Wurmus [Fri, 20 May 2016 12:54:25 +0000 (14:54 +0200)]
gnu: r-r-rsp: Update to 0.30.0.

* gnu/packages/statistics.scm (r-r-rsp): Update to 0.30.0.

8 years agognu: r-rmarkdown: Update to 0.9.6.
Ricardo Wurmus [Fri, 20 May 2016 12:53:44 +0000 (14:53 +0200)]
gnu: r-rmarkdown: Update to 0.9.6.

* gnu/packages/statistics.scm (r-rmarkdown): Update to 0.9.6.

8 years agognu: r-plotrix: Update to 3.6-2.
Ricardo Wurmus [Fri, 20 May 2016 12:52:32 +0000 (14:52 +0200)]
gnu: r-plotrix: Update to 3.6-2.

* gnu/packages/statistics.scm (r-plotrix): Update to 3.6-2.

8 years agognu: r-devtools: Update to 1.11.1.
Ricardo Wurmus [Fri, 20 May 2016 12:51:58 +0000 (14:51 +0200)]
gnu: r-devtools: Update to 1.11.1.

* gnu/packages/statistics.scm (r-devtools): Update to 1.11.1.

8 years agognu: r-git2r: Update to 0.15.0.
Ricardo Wurmus [Fri, 20 May 2016 12:51:26 +0000 (14:51 +0200)]
gnu: r-git2r: Update to 0.15.0.

* gnu/packages/statistics.scm (r-git2r): Update to 0.15.0.

8 years agognu: r-openssl: Update to 0.9.3.
Ricardo Wurmus [Fri, 20 May 2016 12:50:54 +0000 (14:50 +0200)]
gnu: r-openssl: Update to 0.9.3.

* gnu/packages/statistics.scm (r-openssl): Update to 0.9.3.

8 years agognu: r-testthat: Update to 1.0.2.
Ricardo Wurmus [Fri, 20 May 2016 12:49:54 +0000 (14:49 +0200)]
gnu: r-testthat: Update to 1.0.2.

* gnu/packages/statistics.scm (r-testthat): Update to 1.0.2.

8 years agognu: r-knitr: Update to 1.13.
Ricardo Wurmus [Fri, 20 May 2016 12:49:07 +0000 (14:49 +0200)]
gnu: r-knitr: Update to 1.13.

* gnu/packages/statistics.scm (r-knitr): Update to 1.13.

8 years agognu: r-highr: Update to 0.6.
Ricardo Wurmus [Fri, 20 May 2016 12:48:35 +0000 (14:48 +0200)]
gnu: r-highr: Update to 0.6.

* gnu/packages/statistics.scm (r-highr): Update to 0.6.

8 years agognu: r-formatr: Update to 1.4.
Ricardo Wurmus [Fri, 20 May 2016 12:47:34 +0000 (14:47 +0200)]
gnu: r-formatr: Update to 1.4.

* gnu/packages/statistics.scm (r-formatr): Update to 1.4.

8 years agognu: r-evaluate: Update to 0.9.
Ricardo Wurmus [Fri, 20 May 2016 12:47:11 +0000 (14:47 +0200)]
gnu: r-evaluate: Update to 0.9.

* gnu/packages/statistics.scm (r-evaluate): Update to 0.9.

8 years agognu: r-bh: Update to 1.60.0-2.
Ricardo Wurmus [Fri, 20 May 2016 12:46:39 +0000 (14:46 +0200)]
gnu: r-bh: Update to 1.60.0-2.

* gnu/packages/statistics.scm (r-bh): Update to 1.60.0-2.

8 years agognu: r-dbi: Update to 0.4-1.
Ricardo Wurmus [Fri, 20 May 2016 12:46:11 +0000 (14:46 +0200)]
gnu: r-dbi: Update to 0.4-1.

* gnu/packages/statistics.scm (r-dbi): Update to 0.4-1.

8 years agognu: r-rcpp: Update to 0.12.5.
Ricardo Wurmus [Fri, 20 May 2016 12:45:40 +0000 (14:45 +0200)]
gnu: r-rcpp: Update to 0.12.5.

* gnu/packages/statistics.scm (r-rcpp): Update to 0.12.5.

8 years agognu: r-genomicfeatures: Update to 1.24.2.
Ricardo Wurmus [Fri, 20 May 2016 12:41:12 +0000 (14:41 +0200)]
gnu: r-genomicfeatures: Update to 1.24.2.

* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.24.2.

8 years agognu: r-summarizedexperiment: Update to 1.2.2.
Ricardo Wurmus [Fri, 20 May 2016 12:40:25 +0000 (14:40 +0200)]
gnu: r-summarizedexperiment: Update to 1.2.2.

* gnu/packages/bioinformatics.scm (r-summarizedexperiment): Update to 1.2.2.

8 years agognu: r-biocparallel: Update to 1.6.2.
Ricardo Wurmus [Fri, 20 May 2016 12:39:53 +0000 (14:39 +0200)]
gnu: r-biocparallel: Update to 1.6.2.

* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.6.2.

8 years agognu: r-annotationdbi: Update to 1.34.2.
Ricardo Wurmus [Fri, 20 May 2016 12:39:24 +0000 (14:39 +0200)]
gnu: r-annotationdbi: Update to 1.34.2.

* gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.34.2.

8 years agognu: r-variantannotation: Update to 1.18.1.
Ricardo Wurmus [Fri, 20 May 2016 12:38:52 +0000 (14:38 +0200)]
gnu: r-variantannotation: Update to 1.18.1.

* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.18.1.

8 years agognu: r-genomeinfodb: Update to 1.8.1.
Ricardo Wurmus [Fri, 20 May 2016 12:38:22 +0000 (14:38 +0200)]
gnu: r-genomeinfodb: Update to 1.8.1.

* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.8.1.

8 years agognu: btrfs-progs: Update to 4.5.3.
Leo Famulari [Fri, 20 May 2016 01:04:22 +0000 (21:04 -0400)]
gnu: btrfs-progs: Update to 4.5.3.

* gnu/packages/linux.scm (btrfs-progs): Update to 4.5.3.

8 years agognu: jemalloc: Update to 4.2.0.
Jelle Licht [Tue, 17 May 2016 13:40:01 +0000 (06:40 -0700)]
gnu: jemalloc: Update to 4.2.0.

* gnu/packages/jemalloc.scm (jemalloc): Update to 4.2.0.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
8 years agognu: expat: Fix CVE-2016-0718. Improve fix for CVE-2015-1283.
Leo Famulari [Wed, 18 May 2016 17:26:17 +0000 (13:26 -0400)]
gnu: expat: Fix CVE-2016-0718. Improve fix for CVE-2015-1283.

* gnu/packages/patches/expat-CVE-2015-1283-refix.patch,
gnu/packages/patches/expat-CVE-2016-0718.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/xml.scm (expat)[replacement]: New field.
(expat/fixed): New variable.
[source]: Use new patches.

8 years agognu: flann: Do not install .a files.
Ludovic Courtès [Thu, 19 May 2016 12:50:22 +0000 (14:50 +0200)]
gnu: flann: Do not install .a files.

* gnu/packages/maths.scm (flann)[arguments]: Add #:phases.

8 years agognu: python: Add 'python' variables for different major/minor versions.
Hartmut Goebel [Sun, 15 May 2016 09:51:54 +0000 (11:51 +0200)]
gnu: python: Add 'python' variables for different major/minor versions.

* gnu/packages/python.scm (python-2): Rename variable to...
  (python-2.7): ...this.
  (python-2): Refer to "python-2.7".
  (python): Rename variable to...
  (python-3.4): ...this.
  (python-3): Refer to "python-3.4".
  (python): Refer to "python-3".

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
8 years agognu: flann: Strip .mex file.
Ludovic Courtès [Thu, 19 May 2016 09:47:27 +0000 (11:47 +0200)]
gnu: flann: Strip .mex file.

* gnu/packages/maths.scm (flann)[arguments]: Add #:strip-directories.

8 years agognu: Add r-biased-urn.
Ben Woodcroft [Wed, 18 May 2016 11:47:35 +0000 (21:47 +1000)]
gnu: Add r-biased-urn.

* gnu/packages/statistics.scm (r-biased-urn): New variable.

8 years agognu: giflib: Use 'modify-phases'.
Efraim Flashner [Thu, 19 May 2016 10:06:49 +0000 (13:06 +0300)]
gnu: giflib: Use 'modify-phases'.

* gnu/packages/image.scm (giflib)[arguments]: Use 'modify-phases'.

8 years agognu: giflib: Update to 5.1.4 [fixes CVE-2015-7555, CVE-2016-3977].
Efraim Flashner [Thu, 19 May 2016 10:01:55 +0000 (13:01 +0300)]
gnu: giflib: Update to 5.1.4 [fixes CVE-2015-7555, CVE-2016-3977].

* gnu/packages/image.scm (giflib): Update to 5.1.4.

8 years agognu: Add emacs-smartparens.
humanitiesNerd [Tue, 17 May 2016 21:07:06 +0000 (23:07 +0200)]
gnu: Add emacs-smartparens.

*  gnu/packages/emacs.scm (emacs-smartparens): New variable.

Signed-off-by: Alex Kost <alezost@gmail.com>
8 years agoUpdate name for Kei Kebreau.
Kei Kebreau [Wed, 18 May 2016 13:58:47 +0000 (09:58 -0400)]
Update name for Kei Kebreau.

* .mailmap: Add Kei Kebreau.
* gnu/local.mk: Replace "Kei Yamashita" with "Kei Kebreau".
* gnu/packages/calendar.scm: Likewise.
* gnu/packages/dillo.scm: Likewise.
* gnu/packages/fltk.scm: Likewise.
* gnu/packages/game-development.scm: Likewise.
* gnu/packages/games.scm: Likewise.
* gnu/packages/gnome.scm: Likewise.
* gnu/packages/gtk.scm: Likewise.
* gnu/packages/music.scm: Likewise.
* gnu/packages/xfce.scm: Likewise.

Signed-off-by: Alex Kost <alezost@gmail.com>
8 years agognu: octave: Update to 4.0.2.
Kei Yamashita [Wed, 18 May 2016 00:36:17 +0000 (20:36 -0400)]
gnu: octave: Update to 4.0.2.

* gnu/packages/maths.scm (octave): Update to 4.0.2.
[inputs]: Added cyrus-sasl, openssl.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
8 years agognu: Add ntfs-3g.
Ludovic Courtès [Wed, 18 May 2016 19:59:38 +0000 (21:59 +0200)]
gnu: Add ntfs-3g.

* gnu/packages/linux.scm (ntfs-3g): New variable.

8 years agognu: wmbattery: Fix UPower-related memory leak.
Kei Yamashita [Tue, 17 May 2016 22:52:16 +0000 (18:52 -0400)]
gnu: wmbattery: Fix UPower-related memory leak.

* gnu/packages/gnustep.scm (wmbattery)[source](snippet): New field.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
8 years agognu: qtkeychain: Update to 0.6.2.
Efraim Flashner [Wed, 18 May 2016 15:06:47 +0000 (18:06 +0300)]
gnu: qtkeychain: Update to 0.6.2.

* gnu/packages/qt.scm (qtkeychain): Update to 0.6.2.

8 years agognu: Add krona-tools.
Ben Woodcroft [Mon, 25 Apr 2016 03:03:17 +0000 (13:03 +1000)]
gnu: Add krona-tools.

* gnu/packages/web.scm (krona-tools): New variable.

8 years agognu: hurd-headers: Update to 0.8.
Manolis Ragkousis [Wed, 18 May 2016 12:15:41 +0000 (15:15 +0300)]
gnu: hurd-headers: Update to 0.8.

* gnu/packages/hurd.scm (hurd-headers): Update to version 0.8.

8 years agognu: mig: Update to 1.7.
Manolis Ragkousis [Wed, 18 May 2016 12:15:05 +0000 (15:15 +0300)]
gnu: mig: Update to 1.7.

* gnu/packages/hurd.scm (mig): Update to version 1.7.

8 years agognu: gnumach-headers: Update to 1.7.
Manolis Ragkousis [Wed, 18 May 2016 12:14:39 +0000 (15:14 +0300)]
gnu: gnumach-headers: Update to 1.7.

* gnu/packages/hurd.scm (gnumach-headers): Update to version 1.7.

8 years agognu: diamond: Do not specify target architecture.
Ben Woodcroft [Wed, 18 May 2016 11:21:09 +0000 (21:21 +1000)]
gnu: diamond: Do not specify target architecture.

* gnu/packages/bioinformatics.scm (diamond)[arguments]: Do not
specify target architecture.

8 years agognu: Add Piranha.
Ricardo Wurmus [Tue, 26 Apr 2016 14:08:47 +0000 (16:08 +0200)]
gnu: Add Piranha.

* gnu/packages/bioinformatics.scm (piranha): New variable.

8 years agognu: python2-pandas: Fix native-inputs.
Efraim Flashner [Wed, 18 May 2016 07:52:41 +0000 (10:52 +0300)]
gnu: python2-pandas: Fix native-inputs.

* gnu/packages/python.scm (python2-pandas)[native-inputs]: Use python2-
versions of python-panda's native-inputs, not of inputs.

8 years agognu: Add signify.
Leo Famulari [Thu, 17 Mar 2016 07:59:31 +0000 (03:59 -0400)]
gnu: Add signify.

* gnu/packages/crypto.scm (signify): New variable.

8 years agognu: libndp: Update to 1.6 [fixes CVE-2016-3698].
Leo Famulari [Tue, 17 May 2016 18:31:09 +0000 (14:31 -0400)]
gnu: libndp: Update to 1.6 [fixes CVE-2016-3698].

* gnu/packages/networking.scm (libndp): Update to 1.6.

8 years agognu: Add emacs-zenburn-theme.
humanitiesNerd [Tue, 17 May 2016 08:54:13 +0000 (10:54 +0200)]
gnu: Add emacs-zenburn-theme.

* gnu/packages/emacs.scm (emacs-zenburn-theme): New variable.

Signed-off-by: Alex Kost <alezost@gmail.com>
8 years agognu: gd: Fix-CVE-2016-3074.
Leo Famulari [Tue, 17 May 2016 04:20:17 +0000 (00:20 -0400)]
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.

8 years agognu: gd: Specify 'cpe-name'.
Ludovic Courtès [Tue, 17 May 2016 16:07:08 +0000 (18:07 +0200)]
gnu: gd: Specify 'cpe-name'.

* gnu/packages/gd.scm (gd)[properties]: New field.

8 years agolint: Honor 'cpe-name' and 'cpe-version' package properties.
Ludovic Courtès [Tue, 17 May 2016 16:04:13 +0000 (18:04 +0200)]
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'.

8 years agognu: emacs-constants: Remove old patch.
Federico Beffa [Tue, 17 May 2016 12:13:56 +0000 (14:13 +0200)]
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.

8 years agostore: Clarify 'query-path-hash' docstring.
Ludovic Courtès [Tue, 17 May 2016 11:50:10 +0000 (13:50 +0200)]
store: Clarify 'query-path-hash' docstring.

* guix/store.scm (query-path-hash): Clarify docstring.