GitLab

Yearly copyright update

* version/2.2:
  Don't use the enhanced mode as it messes up most analysis names

In enhanced mode, the string "a_b" is displayed as "a" followed by "b"
in subscript. Most of our analyses use underscore, so the fix is to
disable the enhanced mode.

* version/2.2:
  Regenerated the scripts documentation using a recent toolchain
  Regenerated the Doxygen documentation with a recent Doxygen
  Restored compatibility with recent versions of Doxygen

pm=C means that Doxygen will receive C-style annotations for *.pm files,
as ensembldoxygenfilter.pl returns. This option is only needed for Doxygen >1.8.7

pm=C means that Doxygen will receive C-style annotations for *.pm files,
as ensembldoxygenfilter.pl returns. This option is only needed for Doxygen >1.8.7

* version/2.2:
  copyright update 2020

* version/2.2:
  [ENSCORESW-3350] update expected output in lsf.t to conform to Meadow/LSF.pm date guessing in 2020

* version/2.2:
  5.30 is the latest Perl

* version/2.2:
  Travis: explicitly use Ubuntu Trusty for builds
  Travis: Do not construct fake psql executable
  Travis: Add mysql and postgresql to the list of services

Ubuntu Xenial, which is now being rolled out as the default Linux distro
for Travis builds following the end of life of Ubuntu Trusty, does not
start services such as MySQL or PostgreSQL unless told to. Unfortunately
simply adding both to the list of services causes problems with
PostgreSQL tests, even under Trusty and if we explicitly request
PostgreSQL-9.6. See e.g.

https://api.travis-ci.org/v3/job/538735642/log.txt

Make sure we stick with Trusty until after the above has been resolved.

Explicitly enable database services for Travis builds

This conflicts with enabling the PostgreSQL service (see ENSCORESW-3159)
and doesn't seem to be required even when the service is not enabled.

Ubuntu Xenial, which is now being rolled out as the default Linux distro
for Travis builds following the end of life of Ubuntu Trusty, does not
start services such as MySQL or PostgreSQL unless told to. We use the
default distro in our builds so we are likely to be affected.

* version/2.2:
  Travis: comment on which encrypted Slack token is which
  [ENSCORESW-3077] Travis: Unify configuration of Slack notifications

...but keep notifying #ehive-commits.

...but keep notifying #ehive-commits.

* version/2.2:
  Update README.md

* version/2.2:
  add a pull request template

* version/2.2:
  End of support for older Perl versions

Enabled testing on 5.26, as per our announcement. Hopefully it will work !

* version/2.2
  2019 copyright update