gnu: icecat: Add fix for CVE-2015-4495.

* gnu/packages/patches/icecat-CVE-2015-4495.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/gnuzilla.scm (icecat)[source]: Add patch.  Move the 'patches'
  field above the snippet.

gnu: python-2: Update to 2.7.10.

* gnu/packages/patches/python2-sqlite-3.8.4-test-fix.patch,
  gnu/packages/patches/python-libffi-mips-n32-fix.patch: Remove files.
* gnu-system.am (dist_patch_DATA): Remove them.
* gnu/packages/python.scm (python-2): Update to 2.7.10.  Remove patches.
  Update comment showing test failures.

gnu: Add pidgin.

* gnu/packages/patches/pidgin-add-search-path.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/messaging.scm (pidgin): New variable.

gnu: icu4c: Add fix for CVE-2015-4760.

* gnu/packages/patches/icu4c-CVE-2015-4760.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/icu4c.scm (icu4c)[source]: Add patch.

gnu: Add fasthenry.

* gnu/packages/engineering.scm (fasthenry): New variable.
* gnu/packages/patches/fasthenry-spAllocate.patch,
  gnu/packages/patches/fasthenry-spBuild.patch,
  gnu/packages/patches/fasthenry-spFactor.patch,
  gnu/packages/patches/fasthenry-spSolve.patch,
  gnu/packages/patches/fasthenry-spUtils.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.

gnu: Add fastcap.

* gnu/packages/engineering.scm (fastcap): New variable.
  (broken-tarball-fetch): New function.  Suggested by Ludovic Courtès
  <ludo@gnu.org>.
* gnu/packages/patches/fastcap-mulGlobal.patch,
  gnu/packages/patches/fastcap-mulSetup.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.

gnu: expat: Add fix for CVE-2015-1283.

* gnu/packages/patches/expat-CVE-2015-1283.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/xml.scm (expat)[source]: Add patch.

gnu: qemu: Add fixes for CVE-2015-5154 and CVE-2015-5158.

* gnu/packages/patches/qemu-CVE-2015-5154-pt1.patch,
  gnu/packages/patches/qemu-CVE-2015-5154-pt2.patch,
  gnu/packages/patches/qemu-CVE-2015-5154-pt3.patch,
  gnu/packages/patches/qemu-CVE-2015-5158.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/qemu.scm (qemu-headless)[source]: Add patches.

gnu: liblxqt: Fix build with Qt 5.5.

* gnu/packages/patches/liblxqt-include.patch: New file.
* gnu-system.am (dist_patch_DATA): Register patch.
* gnu/packages/lxqt.scm (liblxqt)[source]: Use patch.

gnu: ghostscript: Add fix for CVE-2015-3228.

* gnu/packages/patches/ghostscript-CVE-2015-3228.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/ghostscript.scm (ghostscript)[source]: Add patch.

gnu: qt: Update to 5.5.0.

* gnu/packages/qt.scm (qt): Update to 5.5.0. Update download location.
  Drop patch and snippet.
  [arguments]: Add configure flag to drop qtwebengine module bundling
  chromium.
  [native-inputs]: Drop ninja, needed only for qtwebengine.
  [inputs]: Add harfbuzz to avoid use of bundled copy.
  (qt-4)[inputs]: Remove inherited harfbuzz again.
* gnu/packages/patches/qt5-conflicting-typedefs.patch: Delete file.
* gnu-system.am (dist_patch_DATA): Unregister patch.
* gnu/packages/patches/qt5-runpath.patch: Adapt patch.

gnu: avidemux: Install libraries to lib.

* gnu/packages/video.scm (avidemux)[source]: Add patch to install to lib
  directory instead of lib64 or lib32 depending on the architecture.
  [arguments]: Use the lib instead of the lib64 directory for flags in the
  build phase, so that these flags should now also work on i686.
* gnu/packages/patches/avidemux-install-to-lib.patch: New file.
* gnu-system.am (dist_patch_DATA): Register it.

gnu: bedtools: Add patch to fix compilation on 32 bit systems.

* gnu/packages/patches/bedtools-32bit-compilation.patch: New file.
* gnu/packages/bioinformatics.scm (bedtools)[source]: Add patch.
* gnu-system.am (dist_patch_DATA): Register patch.

Signed-off-by: Andreas Enge <andreas@enge.fr>

gnu: Add extra-cmake-modules.

* gnu/packages/kde-frameworks.scm: New file.
* gnu-system.am (GNU_SYSTEM_MODULES): Register it.

gnu: ripperX: Update to 2.8.0.

* gnu/packages/mp3.scm (ripperx): Update to 2.8.0. Drop one patch and
  add another one.
* gnu/packages/patches/ripperx-libm.patch: Remove file.
* gnu/packages/patches/ripperx-missing-file.patch: New file.
* gnu-system.am (dist_patch_DATA): Register one patch and unregister the
  other.

gnu: teckit: Update to 2.5.4.

* gnu/packages/fontutils.scm (teckit): Update to 2.5.4. Drop patch.
  Use svn-fetch for download.
  [arguments]: Add phase to call autogen.
  [native-inputs]: New field.
* gnu/packages/patches/teckit-cstdio.patch: Delete file.
* gnu-system.am (dist_patch_DATA): Unregister patch.

gnu: julia: Update to 0.3.10.

* gnu/packages/julia.scm (julia): Update to 0.3.10.
* gnu/packages/patches/julia-0.3.10-fix-empty-array.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.

gnu: libmad: Apply fixes for ARMv7 Thumb, etc.

* gnu/packages/patches/libmad-armv7-thumb-pt1.patch,
  gnu/packages/patches/libmad-armv7-thumb-pt2.patch,
  gnu/packages/patches/libmad-frame-length.patch: New files.
* gnu-system.am (dist_patch_DATA): Add them.
* gnu/packages/mp3.scm (libmad)[source]: Add patches.

gnu: tidy: Add fixes for CVE-2015-5522 and CVE-2015-5523.

* gnu/packages/patches/tidy-CVE-2015-5522+5523.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
* gnu/packages/web.scm (tidy)[source]: Add patch.

gnu: Add hoedown.

* gnu/packages/markdown.scm: New file.
* gnu-system.am (GNU_SYSTEM_MODULES): Add it.