gnu: php: Fix test failure.

* gnu/packages/php.scm (php)[inputs]: Use gd-for-php.
(gd-for-php): New private variable.
* gnu/packages/patches/gd-CVE-2018-5711.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.

gnu: Graft glibc to allow execution on Linux 2.6.32.

* gnu/packages/patches/glibc-allow-kernel-2.6.32.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/base.scm (glibc/linux)[replacement]: New field.
(glibc-2.26-patched): New variable.

gnu: dovecot: Update to 2.3.0.1 [fixes CVE-2017-14461].

* gnu/packages/mail.scm (dovecot): Update to 2.3.0.1.
[source]: Remove upstreamed patch.
* gnu/packages/patches/dovecot-CVE-2017-15132.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.

gnu: guile-static-stripped: Add 'finit_module' wrapper.

* gnu/packages/patches/guile-linux-syscalls.patch: Add
'load-linux-module/fd' procedure.

gnu: wavpack: Fix CVE-2018-6767.

* gnu/packages/patches/wavpack-CVE-2018-6767.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/audio.scm (wavpack)[source](patches): Add it.

gnu: python-mox3: Update to 0.24.0.

* gnu/packages/openstack.scm (python-mox3): Update to 0.24.0.
[source](patches): New field.
[arguments]: Remove.
[native-inputs]: Add PYTHON-OPENSTACKDOCSTHEME and PYTHON-SUBUNIT.  Replace
PYTHON-SPHINX with PYTHON-SPHINX-1.6.  Move PYTHON-PBR and PYTHON-FIXTURES ...
[propagated-inputs]: ... here.  New field.
[description]: Don't mention explicit Python versions.
* gnu/packages/patches/python-mox3-python3.6-compat.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.

gnu: dblatex: Update to 0.3.10.

* gnu/packages/docbook.scm (dblatex): Update to 0.3.10.
[source]: Remove patch.
* gnu/packages/patches/dblatex-remove-multirow.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.

gnu: perl-gd: Update to 2.68.

* gnu/packages/gd.scm (perl-gd): Update to 2.68.
[source]: Remove obsolete patch.
[native-inputs]: Remove perl-module-build.
[inputs]: Use canonical package names and order alphabetically.
[arguments]: Replace #:module-build-flags with fewer #:make-maker-flags,
enable #:tests?, and remove ‘clear-autogenerated-files’ phase.
* gnu/packages/patches/perl-gd-options-passthrough-and-fontconfig.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.

gnu: python-parse: Update to 1.8.2.

* gnu/packages/patches/python-parse-too-many-fields.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
* gnu/packages/python.scm (python-parse): Update to 1.8.2.
[source](patches): Remove.
[arguments]: Use INVOKE instead of SYSTEM*.

gnu: wxmaxima: Update to 18.02.0.

* gnu/packages/maths.scm (wxmaxima): Update to 18.02.0.
[source]: Add patch.
[build-system]: Use the cmake-build-system.
[native-inputs]: Remove autoconf and automake.
[arguments]: Disable tests, remove 'autoconf' phase.
* gnu/packages/patches/wxmaxima-do-not-use-old-gnuplot-parameters.patch: New
file.
* gnu/local.mk (dist_patch_DATA): Add it.

gnu: password-store: Fix compatibility with GnuPG 2.2.5.

* gnu/packages/patches/password-store-gnupg-compat.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/password-utils.scm (password-store)[source]: Use it.

gnu: wavpack: Fix CVE-2018-7253 and CVE-2018-7254.

* gnu/packages/patches/wavpack-CVE-2018-7253.patch,
gnu/packages/patches/wavpack-CVE-2018-7254.patch: New files.
* gnu/local.mk (dist_patch_DATA): Register them.
* gnu/packages/audio.scm (wavpack)[source](patches): Use them.

gnu: optipng: Update to 0.7.7 [security fixes].

This release claims to fix 2 vulnerabilities:
- ‘an integer overflow vulnerability in the TIFF decoder’
  (CVE-2017-1000229, previously patched in Guix), and
- ‘a buffer overflow vulnerability in the GIF decoder’.

* gnu/packages/image.scm (optipng): Update to 0.7.7.
[source]: Remove patch.
[arguments]: Substitute INVOKE for SYSTEM* and end phase with #t.
* gnu/packages/patches/optipng-CVE-2017-1000229.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.

gnu: htop: Fix tree view.

* gnu/packages/patches/htop-fix-process-tree.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/admin.scm (htop)[source]: Use it.

gnu: ldc: Update to 1.7.0.

Fixes recent bootstrap and updates ldc and package manager to match.

* gnu/packages/ldc.scm (ldc-bootstrap): Update to 0.17.4.
[properties]: Add max-slient-time.
[arguments]<#:phases>[patch-phobos]: Update patches (see below).
(ldc): Update to 1.7.0.
(ldc-beta): Delete variable.
[arguments]<#:phases>[patch-phobos]: Update patches (see below).
[arguments]<#:phases>[check]: Use invoke.
(rdmd): Update to 2.077.1.
(dub): Update to 1.7.2.
* gnu/local.mk (dist_patch_DATA): Remove "ldc-disable-tests.patch".
Add "ldc-bootstrap-disable-tests.patch".
Remove "ldc-1.1.0-disable-phobos-tests.patch".
Add "ldc-1.7.0-disable-phobos-tests.patch".
Remove "ldc-1.1.0-disable-dmd-tests.patch".

Co-Authored-By: Danny Milosavljevic <dannym@scratchpost.org>

gnu: qemu: Update to 2.11.1.

* gnu/packages/patches/qemu-CVE-2017-15038.patch,
gnu/packages/patches/qemu-CVE-2017-15289.patch: Delete files.
* gnu/local.mk (dist_patch_DATA): Remove them.
* gnu/packages/virtualization.scm (qemu): Update to 2.11.1
[source](patches): Remove.

gnu: freetype: Fix CVE-2018-6942.

* gnu/packages/patches/freetype-CVE-2018-6942.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/fontutils.scm (freetype)[replacement]: New field.
(freetype/fixed): New variable.

gnu: Add gzdoom.

* gnu/packages/games.scm (gzdoom): New variable.
* gnu/packages/patches/gzdoom-search-in-installed-share.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>

gnu: kde-frameworks: Update to 5.42.0 resp. 5.42.1

Beside simple updating:
- Change all todo-comments for test-cases into "fixme" comments to make them
  easier to find.
- breeze-icons: Blacklist a test failing at build.kde.org, too.
- extra-cmake-modules: Patch out a vanised test-case.
- kfilemetadata: Can now run the test-suite uninstalled. Blacklist a failing
  test-case.
- kimageformats: No longer symlink plugins into ./bin for testing.
- ktexteditor: Remove now unused patch.
- plasma-framework: Add input kirigami
- sonnet: For testing set QT_QPA_PLATFORM=offscreen.

* gnu/packages/kde-frameworks.scm (attica, baloo, bluez-qt, kactivities,
  kactivities-stats, kapidox, karchive, kauth, kbookmarks, kcmutils, kcodecs,
  kcompletion, kconfig, kconfigwidgets, kcoreaddons, kcrash, kdbusaddons,
  kde-frameworkintegration, kdeclarative, kded, kdelibs4support,
  kdesignerplugin, kdesu, kdewebkit, kdnssd, kdoctools, kemoticons,
  kglobalaccel, kguiaddons, khtml, ki18n, kiconthemes, kidletime, kinit, kio,
  kirigami, kitemmodels, kitemviews, kjobwidgets, kjs, kjsembed, kmediaplayer,
  knewstuff, knotifications, knotifyconfig, kpackage, kparts, kpeople,
  kplotting, kpty, kross, krunner, kservice, ksyntaxhighlighting,
  ktextwidgets, kunitconversion, kwallet, kwayland, kwindowsystem, kxmlgui,
  kxmlrpcclient, modemmanager-qt, networkmanager-qt, oxygen-icons,
  prison, solid, threadweaver): Update to 5.42.0.
  (kwidgetsaddons): Update to 5.42.1.
  (breeze-icons): Update to 5.42.0. [#:phases]<disable-failing-test> New
  phase.
  (extra-cmake-modules): Update to 5.42.0.
  [#:phases]<post-5.42.0-release-fix>: New phase.
  (kfilemetadata): Update to 5.42.0. [#:phases]: No longer move check behind
  install. [#:phases]<check-setup> Remove. [#:phase]<disable-failing-test> New
  phase.
  (kimageformats): Update to 5.42.0. [#:phases]<check-setup>: No longer
  symlink plugins into ./bin.
  (ktesteditor)[source]: Remove patch.
  (plasma-framework)[inputs]: Add  kirigami
  (sonnet): Update to 5.42.0. [#:phases]<check-setup> New phase.
* gnu/packages/patches/ktexteditor-5.39.0-autotests-dependencies.patch:
  Remove file.
* gnu/local.mk (dist_patch_DATA): Remove it.

gnu: qtbase: Use the store paths for other packages and dynamically loaded libs.

Transfer the applicable NixOS patches as of 2018-01-19:

- Not adopted: We don't change the .cmake.in and .prf, but use config
  mechanisms provided by th Qt build system.

- src/corelib/tools/qtimezoneprivate_tz.cpp: Adopted patch: Use $TZDIR to
  search for time-zone data. Thus avoid depending on package "tzdata", which
  often introduces changes with near-immediate effects, so it's important to
  be able to update it fast.

- src/corelib/kernel/qcoreapplication.cpp: Not adopted: NixOS adds plugin
  paths derived from PATH. We do not need this, since we already have
  native-search-path QT_PLUGIN_PATH.

- src/network/kernel/qdnslookup_unix.cpp,
  src/network/kernel/qhostinfo_unix.cpp: Transferred: Use hard-coded path to
  libresolv.

- src/network/ssl/qsslcontext_openssl.cpp: Not adopted: NixOS changes a
  conditional compilation for Qt 5.9 (but leaves it unchanged for Qt 5.10) to
  fix compilation with libressl.  But Qt does not support libressl anway, see
  config.tests/openssl/openssl.cpp in qtbase 5.9.4.

- src/plugins/platforminputcontexts/compose/generator/qtablegenerator.cpp:
  Transferred: Use hard-coded path to libx11.

- src/plugins/platforms/xcb/gl_integrations/xcb_glx/qglxintegration.cpp:
  Transferred: Use hard-coded path to mess's libGL, no need for a fall-back.

- src/plugins/platforms/xcb/qxcbcursor.cpp: Transferred: Use hard-coded path
  to Xcursor.

- src/plugins/platformthemes/gtk3/main.cpp: Not adopted: NixOS changes
  $XDG_DATA_DIRS and $GIO_EXTRA_MODULES in the code. We already have a
  search-path-specification for this.

- src/testlib/qtestassert.h: Decided not to adopt this for guix.

* gnu/packages/patches/qtbase-use-TZDIR.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/qt.scm (qtbase): Add comment. [source]: Use new patch.
  [arguments]<#:phases>'patch-paths': New phase.