Added unzipped files for latest jQuery-File-Upload

see https://github.com/blueimp/jQuery-File-Upload
Vanilla server-side storage definition for files
Modifications to support project naming conventions
Controller for supporting files (before modifications)
Modifications to files controller
Improve push.sh command line processing framework, in preparation for adding new functionality
Merge Duke's API work in (intermediate checkin)
Spun doc store indexing and API app setup out to separate files; push-api and push-db commands; logging tweaks; activate virtualenv from functions.sh; fix neo4j stop logic
Merge pull request #152 from OpenTreeOfLife/deployment-more

Command framework
New index command; made indexing work off of new treenexus_test repo; deal with github .pem file; set up virtualenv for all script files; added no-install-recommends flag to apt-get commands; conditionalize pycurl install
Merge pull request #153 from OpenTreeOfLife/deployment-more

New index command; made indexing work off of new treenexus_test repo; de...
Fix bad bugs in wsgihandler setup and web2py setup; also restart the neo4j servers unconditionally
Merge pull request #154 from OpenTreeOfLife/deployment-more

Fix bad bugs in wsgihandler setup and web2py setup; also restart the neo...
Repair shell escaping in install-api
Merge pull request #155 from OpenTreeOfLife/deployment-more

Repair shell escaping in install-api
Working upload and progress widgets
Working UI for adding, editing, removing supporting files.
Adding iframe-transport option for older browsers
Merge pull request #156 from OpenTreeOfLife/supporting-files-upload

Working UI for adding, editing, removing supporting files.
Bring documentation up to date, including index-db