gnu: Add prodigal.

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

gnu: shogun: Build with install RPATH.

* gnu/packages/bioinformatics.scm (shogun)[arguments]: Add configure flag to
  build with install RPATH.

gnu: englightenment: Use https URLs.

* gnu/packages/enlightenment.scm (efl, elementary, emotion-generic-players,
  terminology, enlightenment): Use https instead of http since the latter
  redirects to the former.

gnu: enlightenment: Update to 0.19.5.

* gnu/packages/enlightenment.scm (enlightenment): Update to 0.19.5.

gnu: emotion-generic-loaders: Update to 1.14.0.

* gnu/packages/enlightenment.scm (emotion-generic-loaders): Update
  to 1.14.0.

gnu: evas-generic-loaders: Update to 1.14.0.

* gnu/packages/enlightenment.scm (evas-generic-loaders): Update
  to 1.14.0.

gnu: elementary: Update to 1.14.2.

* gnu/packages/enlightenment.scm (elementary): Update to 1.14.2.

gnu: efl: Update to 1.14.2.

* gnu/packages/enlightenment.scm (efl): Update to 1.14.2.

gnu: Add ruby-rake-compiler.

* gnu/packages/ruby.scm (ruby-rake-compiler): New variable.

gnu: eigen: Update to 3.2.5.

* gnu/packages/algebra.scm (eigen): Update to 3.2.5.

gnu: icecat: Fix CVE-2015-{2722,2724,2728,2733,2735,2736,2738,2739,2740,2743}.

* gnu/packages/patches/icecat-CVE-2015-2722-pt1.patch,
  gnu/packages/patches/icecat-CVE-2015-2722-pt2.patch,
  gnu/packages/patches/icecat-CVE-2015-2724-pt1.patch,
  gnu/packages/patches/icecat-CVE-2015-2724-pt2.patch,
  gnu/packages/patches/icecat-CVE-2015-2724-pt3.patch,
  gnu/packages/patches/icecat-CVE-2015-2724-pt4.patch,
  gnu/packages/patches/icecat-CVE-2015-2728-pt1.patch,
  gnu/packages/patches/icecat-CVE-2015-2728-pt2.patch,
  gnu/packages/patches/icecat-CVE-2015-2733-pt1.patch,
  gnu/packages/patches/icecat-CVE-2015-2733-pt2.patch,
  gnu/packages/patches/icecat-CVE-2015-2735.patch,
  gnu/packages/patches/icecat-CVE-2015-2736.patch,
  gnu/packages/patches/icecat-CVE-2015-2738.patch,
  gnu/packages/patches/icecat-CVE-2015-2739.patch,
  gnu/packages/patches/icecat-CVE-2015-2740.patch,
  gnu/packages/patches/icecat-CVE-2015-2743.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/gnuzilla.scm (icecat)[source]: Add patches.

Add '.mailmap'.

* .mailmap: New file.

Clean up 'THANKS' and 'AUTHORS'.

* THANKS: Add Konrad Hinsen, Cyprien Nicolas, Yakkala Yagnesh Raghava
  and Alexander Shendi.  Remove Federico Beffa, Marek Benc, John
  Darrington, rekado, Cyrill Schenkel and Andy Wingo because they are
  placed in AUTHORS.  Move Amirouche Boubekki and Alex Kost to ...
* AUTHORS: ... here.  Add Arne Babenhauserheide, Ian Denhardt, Kevin
  Lemonnier, Mathieu Lirzin, Pierre-Antoine Rault and Ben Woodcroft.
  Fix some names and emails.

gnu: unrtf: Fix download location.

* gnu/packages/unrtf.scm (unrtf): Fix download location.

gnu: r: Replace "atlas" with "openblas".

* gnu/packages/statistics.scm (r)[inputs]: Replace "atlas" with "openblas".

gnu: gnutls: Move man3 pages to "doc" output.

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

gnu: qt-4: Remove reference from "out" to "doc".

* gnu/packages/qt.scm (qt-4)[arguments]: Remove '-docdir' configure flag.
  Add 'move-doc' phase.

gnu: qt-4: Use a more standard directory layout.

* gnu/packages/qt.scm (qt-4)[arguments]: Pass -datadir, -importdir,
  -plugindir, and -translationdir.

gnu: qt-4: Use 'modify-phases'.

* gnu/packages/qt.scm (qt-4)[arguments]: Use 'modify-phases' instead of
  'alist-replace'.

gnu: cups-filter: Install backends and filters under lib/cups.

This ensures that they are stripped during the 'strip' phase, thereby removing
references to GCC and linux-libre-headers that would otherwise be found in
debugging symbols.

* gnu/packages/cups.scm (cups-filters)[source]: Change pkgbackenddir and
  pkgfilterdir to $(PREFIX)/lib/cups/{filter,backend}.
  (cups)[arguments]: Adjust accordingly.