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closes #2057

closes #1179

As we don't provide those Vidjil files (maybe we should?), comment the
corresponding configuration as it will (nicely) fail to load the files.

This is now provided as an example

The default proxy address was set to a platform specific URL. Since that
patform will soon be decommissioned, it is important to set the URL to
the generic address.

Missing crossdomain headers were prevent some features of the javascript
segmenter from functionning.
This should resolve those issues

RyanHerb authored Dec 08, 2016 and Mathieu Giraud committed Dec 09, 2016

With the new server some queries are a little bit longer than other, so
an extended timeout length might be needed.

RyanHerb authored Dec 08, 2016 and Mathieu Giraud committed Dec 09, 2016

Some timeouts were hard-coded with a value that existed as a global
variable.

Thanks for @mikael-s for discovering this bug

This usually occurs on a fresh install without 'make germline'.
Fixes #1667.

Fix #2052

fcgiwrap is required for the vidjil CGIs to work in the browser. Now it
will be installed automatically

the get_info_dict method had an incorrect variable name and was breaking
the sample_set/index page for runs

The default redirect for non-admin users is now set to the new
sample_set list with type=patient

One of the logging calls indicated that the loaded list was of runs
regardless of the type.

@tydax solved #2045 with 7c97c416.
Here we make sure that a regression won't happen.

Just provide the syntax for information, but the default proxy is fine.
Moreover we update the URL to a one which is currently working.

Spotted thanks to @tydax.

Discussion with @mikael-s, @aurelBZH and @RyanHerb:
The same menu entry was previously used to open/save different sample sets.

There was a reference to the type variable in the view, although the
type variable had been replaced a few commits ago.

Added missing parameter to request when sorting the sample_set list

Discussed in #2003. The e-value depends on the number of (segmented) representatives,
not the total number of clones.

This is used in the cloneDB.cgi to ensure unicity in a same sample

HERBERT Ryan authored Nov 30, 2016 and Mikaël Salson committed Dec 01, 2016

Previous error was present twice in config urls