WIP Cartridge Refactor - glob dot files from CartridgeRepository

* When copying the cartridge from the remote repository, also copy any dot files/directories
fix for bug918947, remove gear called on non-existent gear of an app
Bug 923070 - Removing duplicate warning from oo-admin-broker-auth
<ApplicationContainer> bug 919619 move git gc later in tidy process.

https://bugzilla.redhat.com/show_bug.cgi?id=919619  tidy - node execution failure

It appeared rhc tidy was aborting because git cleanup performs writes which
may fail when the gear is out of space. The fix is to do this after other
non-write operations which are likely to free up space first.
v2 cart cleanup
<threaddump> fix bug 923405 so ruby thread dump reports useful log file

https://bugzilla.redhat.com/show_bug.cgi?id=923405 thread dumps report the wrong log file name due to timezone

When ruby does a thread dump it goes in the httpd server log. This is
rotated via rotatelogs and the name includes the timezone in it. Due to
various complications this does not always match the TZ from `date`.
Rather than try to give the exact file name, we now just give a glob
that is good enough.
WIP: v2 mysql cartridge
Automatic commit of package [openshift-origin-cartridge-mysql] release [0.0.1-1].
WIP: mysql v2
Automatic commit of package [openshift-origin-cartridge-mysql] release [0.0.2-1].
WIP: v2 mysql
Fix bug 918823
WIP Cartridge Refactor -- restore --version to setup calls
Cleanup setup script and remove unused file.
Merge pull request #1706 from jwhonce/wip/setup_dot_files

Merged by openshift-bot
Merge pull request #1707 from rajatchopra/master

Merged by openshift-bot
jenkins client WIP
Merge pull request #1708 from brenton/BZ923070

Merged by openshift-bot
Fix for bug 923176
 - Handling missing or empty component_instances
 - Handling false positives for UID checks for districts
Merge pull request #1704 from sosiouxme/bz919619

Merged by openshift-bot