services: mysql: Add port to configuration

* gnu/services/databases.scm (<mysql-configuration>): Add port field.
(mysql-configuration-file): Use the port field when creating the
configuration file.
* doc/guix.texi (Database Services): Document it.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>

gnu: xf86-input-keyboard: Update to 1.9.0.

* gnu/packages/xorg.scm (xf86-input-keyboard): Update to 1.9.0.

gnu: xf86-video-ati: Update to 7.8.0.

* gnu/packages/xorg.scm (xf86-video-ati): Update to 7.8.0.

gnu: xf86-input-libinput: Update to 0.23.0.

* gnu/packages/xorg.scm (xf86-input-libinput): Update to 0.23.0.

gnu: iproute2: Update to 4.9.0.

* gnu/packages/linux.scm (iproute2): Update to 4.9.0.
[home-page]: Point to the latest attempt, and use HTTPS.

gnu: libjpeg-turbo: Fix typo.

This is a followup to commit e90a706e1686aaf3a1004683be8a3f3a4cbaf22e.

* gnu/packages/image.scm (libjpeg-turbo): Remove extra "\".

gnu: epic5: Fix 'license' field to contain only licenses.

* gnu/packages/irc.scm (epic5)[license]: Call 'license:non-copyleft'.

gnu: python-pyqt: Update to 5.7.

* gnu/packages/qt.scm (python-pyqt): Update to 5.7.

gnu: onionshare: Update to 0.9.2 (fixes CVE-2016-5026).

* gnu/packages/tor.scm (onionshare): Update to 0.9.2.
[source]: Remove patch.
[arguments]: Update substitutions for new version.
* gnu/packages/patches/onionshare-fix-install-paths.patch: Remove file.
* gnu/local.mk (dist_patch_DATA): Remove it.

gnu: diamond: Update to 0.8.29.

* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.29.

gnu: orfm: Update to 0.6.1.

* gnu/packages/bioinformatics.scm (orfm): Update to 0.6.1.

gnu: libsrtp: Fix building on mips.

* gnu/packages/telephony.scm (libsrtp)[arguments]: Add substitution
changing variable name from 'mips' to 'mips_value'. Also substitute
dictionary location in test suite.

gnu: libsrtp: Have source use file-name.

* gnu/packages/telephony.scm (libsrtp)[source]: Add file-name field.

gnu: libjpeg-turbo: Fix build on mips.

* gnu/packages/image.scm (libjpeg-turbo)[arguments]: Add substitution to
set variable type before use.

gnu: lftp: Update to 4.7.4.

* gnu/packages/ftp.scm (lftp): Update to 4.7.4.
[home-page]: Change to new domain.
[source]: Adjust to new domain. Add mirror.

gnu: python-setuptools: Update to 31.0.0.

* gnu/packages/python.scm (python-setuptools, python2-setuptools): Update to
31.0.0.
[source]: Use 'pypi-uri'.
[license]: Update for bundled libraries.

gnu: duplicity: Use 'modify-phases' syntax.

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

import: cpan: Add updater.

* guix/import/cpan.scm (module->dist-name): Fetch the field of interest.
(cpan-fetch): Accept release name rather than module name.
(fix-source-url): Rename to ...
(cpan-source-url): ... this.  Take metadata as parameter.
(package->upstream-name, cpan-version, cpan-package?, latest-release):
New procedures.
(cpan-module->sexp): Use cpan-version and cpan-source-url.
(%cpan-updater): New variable.
* guix/scripts/refresh.scm (%updaters): Add %CPAN-UPDATER.

import: cpan: Move core-module? to top-level.

* guix/import/cpan.scm (cpan-module->sexp): Move local core-module?
procedure to ...
(core-module?): ... here.

import: json: Silence json-fetch output.

* guix/import/json.scm (json-fetch): Use http-fetch instead of url-fetch
to avoid writing to stdout and a temporary file for each invocation.
* guix/import/gem.scm (rubygems-fetch): Do not redirect json-fetch
output to /dev/null.
* guix/import/pypi.scm (pypi-fetch): Likewise.