gnu: ruby-shoulda-matchers: Update to 3.1.1.

* gnu/packages/ruby.scm (ruby-shoulda-matchers): Update to 3.1.1.
[arguments]: Remove 'fix-import' phase.

gnu: ruby-domain-name: Update to 0.5.20160310.

* gnu/packages/ruby.scm (ruby-domain-name): Update to 0.5.20160310.

gnu: ruby-nokogiri: Update to 1.6.7.2.

* gnu/packages/ruby.scm (ruby-nokogiri): Update to 1.6.7.2.
[arguments]: Relax 'mini_portile2' dependency.

guix: ruby-build-system: Extract gemspec during 'extract-gemspec'.

* guix/build/ruby-build-system.scm (build): Move extraction from here ...
(extract-gemspec): ... to here.  New variable.
(first-gemspec): New variable.
(%standard-phases): Add 'extract-gemspec' phase.

gnu: linux-libre: Update to 4.6.

* gnu/packages/linux.scm (linux-libre): Update to 4.6.
* gnu/packages/linux-libre-4.6-x86_64.conf,
gnu/packages/linux-libre-4.6-i686.conf: New files.
* gnu/packages/linux-libre-4.5-x86_64.conf,
gnu/packages/linux-libre-4.5-i686.conf: Delete files.
* Makefile.am (KCONFIGS): Update accordingly.

gnu: python-libxml2: Drop replacement from inherited libxml2.

This is a followup to commit 493e9a5a8f613764cfa396c33ee6cb381b0dbbef.

* gnu/packages/xml.scm (python-libxml2)[replacement]: Set to #f, overriding
inherited value.

gnu: freeipmi: Update to 1.5.2.

* gnu/packages/freeipmi.scm (freeipmi): Update to 1.5.2.

gnu: linux-libre-4.1: Update to 4.1.25.

* gnu/packages/linux.scm (linux-libre-4.1): Update to 4.1.25.

gnu: webkitgtk: Update to 2.12.3 [fixes CVE-2016-{1856,1857}].

* gnu/packages/webkit.scm (webkitgtk): Update to 2.12.3.

graft: Fail when one of the threads raises an exception.

Fixes <http://bugs.gnu.org/23581>.

* guix/build/graft.scm (exit-on-exception): New procedure.
(rewrite-directory): Use it to wrap REWRITE-LEAF.

size: Pass 'requisites' a list of items.

* guix/scripts/size.scm (substitutable-requisites): Change 'item' to
'items' and adjust.
(requisites*): Likewise.
(mappend-map): Remove.
(store-profile): Adjust accordingly.

store: 'requisites' now takes a list of store items.

* guix/store.scm (fold-path): Change 'path' to 'paths' and adjust body
accordingly.
(requisites): Likewise.
* guix/scripts/environment.scm (inputs->requisites): Adjust
user accordingly.
* guix/scripts/size.scm (requisites*): Likewise.
* guix/scripts/gc.scm (guix-gc): Likewise.
* tests/store.scm ("requisites"): Likewise.

size: Accept several arguments.

* guix/scripts/size.scm (display-profile): Display WHOLE at then end.
(guix-size): Accept several FILES.
* doc/guix.texi (Invoking guix size): Add example with several items.

size: 'store-profile' takes a list of store items.

* guix/scripts/size.scm (mappend-map): New procedure.
(store-profile): Change 'item' to 'items' and adjust code accordingly.
(guix-size): Update caller.
* tests/size.scm ("store-profile"): Likewise.

tests: Do not run 'cve' checker in 'tests/guix-lint.sh'.

Reported by Malcolm, Cook <MEC@stowers.org>.

* tests/guix-lint.sh: Pass '-c synopsis,description' in first invocation
so we don't run the 'cve' checker.

gnu: libxml2: Fix CVE-2016-3627 and CVE-2016-3705.

* gnu/packages/patches/libxml2-CVE-2016-3627.patch,
gnu/packages/patches/libxml2-CVE-2016-3705.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/xml.scm (libxml2)[replacement]: New field.
(libxml2/fixed): New variable.

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.

ui: Let users report translation bugs.

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

gnu: Add emacs-clojure-mode.

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

Signed-off-by: Alex Kost <alezost@gmail.com>

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.