Doc running App from anywhere & CreateApp refactor

Conflicts:

	omero/developers/Web/CreateApp.txt
Add app settings to docs from PR #1788
update plugin options. See #11806
Merge remote-tracking branch 'origin/develop' into 11787_server_upgrade
Add note to What's new page about password salting
Improve description of CLI usage as a client
Update default nginx config
Document custom OMERO.web url subdirectory
Add note about conflicting mod_fastcgi options
Extend scope of introductory sentence for the CLI
Merge pull request #576 from sbesson/11787_server_upgrade

Review server upgrade and password provider pages
Merge pull request #582 from will-moore/web_plugin_update_11806

update plugin options. See #11806
Merge pull request #580 from pwalczysko/fix-permissions

Exchange "Link" for user-friendlier "Mix data" cf. Gus's comment
Removing swordfish as root password
merge develop -D org -I include -E exclude: PR 533 (Removing BF anchor until it exists)
merge develop -D org -I include -E exclude: PR 573 (Continous integration fixes)
merge develop -D org -I include -E exclude: PR 578 (Django 1.6 for devs 11757)
merge develop -D org -I include -E exclude: PR 581 (Doc running App from anywhere & CreateApp refactor)
merge develop -D org -I include -E exclude: PR 583 (Improve description of CLI usage as a client)
merge develop -D org -I include -E exclude: PR 584 (Web config docs 11723 11724)