Add dependencies when used as a plugin to configuration file.

Define the various dependencies and information when the
client is used a a plugin.
Move user notification to main class.
Remove whitespace in dependencies list.
Handle the fact that the tag can have not child nodes.
Add support for and/or when checking dependencies list.
Adjust warning message depending on the conjunction used.
Add examples about querying bulk annotations attached to screens
specification: Unify duplicated schemas

The publicly available schemas in Schemas have been moved to
Released-Schema, replacing the equivalent versions using
github schema locations rather than the public locations.
The renaming is as follows:

Old location                                       New location
─────────────────────────────────────────────────  ─────────────────────────────────────────────
Schemas/AnalysisChain/2007-06/AnalysisChain.xsd    Released-Schema/2007-06/V2/AnalysisChain.xsd
Schemas/AnalysisChain/2008-02/AnalysisChain.xsd    Released-Schema/2008-02/V2/AnalysisChain.xsd
Schemas/AnalysisChain/2008-09/AnalysisChain.xsd    Released-Schema/2008-09/V1/AnalysisChain.xsd
Schemas/AnalysisChain/2009-09/AnalysisChain.xsd    Released-Schema/2009-09/V1/AnalysisChain.xsd
Schemas/AnalysisModule/2007-06/AnalysisModule.xsd  Released-Schema/2007-06/V2/AnalysisModule.xsd
Schemas/AnalysisModule/2008-02/AnalysisModule.xsd  Released-Schema/2008-02/V2/AnalysisModule.xsd
Schemas/AnalysisModule/2008-09/AnalysisModule.xsd  Released-Schema/2008-09/V1/AnalysisModule.xsd
Schemas/AnalysisModule/2009-09/AnalysisModule.xsd  Released-Schema/2009-09/V1/AnalysisModule.xsd
Schemas/BinaryFile/2007-06/BinaryFile.xsd          Released-Schema/2007-06/V2/BinaryFile.xsd
Schemas/BinaryFile/2008-02/BinaryFile.xsd          Released-Schema/2008-02/V2/BinaryFile.xsd
Schemas/BinaryFile/2008-09/BinaryFile.xsd          Released-Schema/2008-09/V1/BinaryFile.xsd
Schemas/BinaryFile/2009-09/BinaryFile.xsd          Released-Schema/2009-09/V1/BinaryFile.xsd
Schemas/BinaryFile/2010-04/BinaryFile.xsd          Released-Schema/2010-04/V1/BinaryFile.xsd
Schemas/BinaryFile/2010-06/BinaryFile.xsd          Released-Schema/2010-06/V1/BinaryFile.xsd
Schemas/BinaryFile/2011-06/BinaryFile.xsd          Released-Schema/2011-06/V1/BinaryFile.xsd
Schemas/CA/2007-06/CA.xsd                          Released-Schema/2007-06/V2/CA.xsd
Schemas/CA/2008-02/CA.xsd                          Released-Schema/2008-02/V2/CA.xsd
Schemas/CA/2008-09/CA.xsd                          Released-Schema/2008-09/V1/CA.xsd
Schemas/CA/2009-09/CA.xsd                          Released-Schema/2009-09/V1/CA.xsd
Schemas/CLI/2007-06/CLI.xsd                        Released-Schema/2007-06/V2/CLI.xsd
Schemas/CLI/2008-02/CLI.xsd                        Released-Schema/2008-02/V2/CLI.xsd
Schemas/CLI/2008-09/CLI.xsd                        Released-Schema/2008-09/V1/CLI.xsd
Schemas/CLI/2009-09/CLI.xsd                        Released-Schema/2009-09/V1/CLI.xsd
Schemas/DataHistory/2007-06/DataHistory.xsd        Released-Schema/2007-06/V2/DataHistory.xsd
Schemas/DataHistory/2008-02/DataHistory.xsd        Released-Schema/2008-02/V2/DataHistory.xsd
Schemas/DataHistory/2008-09/DataHistory.xsd        Released-Schema/2008-09/V1/DataHistory.xsd
Schemas/DataHistory/2009-09/DataHistory.xsd        Released-Schema/2009-09/V1/DataHistory.xsd
Schemas/Editor/2008-04/Editor.xsd                  Released-Schema/2008-04/V1/Editor.xsd
Schemas/MLI/2007-06/MLI.xsd                        Released-Schema/2007-06/V2/MLI.xsd
Schemas/MLI/2008-02/MLI.xsd                        Released-Schema/2008-02/V2/MLI.xsd
Schemas/MLI/2008-09/MLI.xsd                        Released-Schema/2008-09/V1/MLI.xsd
Schemas/MLI/2009-09/MLI.xsd                        Released-Schema/2009-09/V1/MLI.xsd
Schemas/OME/2007-06/ome.xsd                        Released-Schema/2007-06/V2/ome.xsd
Schemas/OME/2008-02/ome.xsd                        Released-Schema/2008-02/V2/ome.xsd
Schemas/OME/2008-09/ome.xsd                        Released-Schema/2008-09/V1/ome.xsd
Schemas/OME/2009-09/ome.xsd                        Released-Schema/2009-09/V1/ome.xsd
Schemas/OME/2010-04/ome.xsd                        Released-Schema/2010-04/V1/ome.xsd
Schemas/OME/2010-06/ome.xsd                        Released-Schema/2010-06/V1/ome.xsd
Schemas/OME/2011-06/ome.xsd                        Released-Schema/2011-06/V1/ome.xsd
Schemas/OMERO/2008-09/OMERO.xsd                    Released-Schema/2008-09/V1/OMERO.xsd
Schemas/OMERO/2009-09/OMERO.xsd                    Released-Schema/2009-09/V1/OMERO.xsd
Schemas/OMERO/2010-04/OMERO.xsd                    Released-Schema/2010-04/V1/OMERO.xsd
Schemas/OMERO/2010-06/OMERO.xsd                    Released-Schema/2010-06/V1/OMERO.xsd
Schemas/OMERO/2011-06/OMERO.xsd                    Released-Schema/2011-06/V1/OMERO.xsd
Schemas/ROI/2009-09/ROI.xsd                        Released-Schema/2009-09/V1/ROI.xsd
Schemas/ROI/2010-04/ROI.xsd                        Released-Schema/2010-04/V1/ROI.xsd
Schemas/ROI/2010-06/ROI.xsd                        Released-Schema/2010-06/V1/ROI.xsd
Schemas/ROI/2011-06/ROI.xsd                        Released-Schema/2011-06/V1/ROI.xsd
Schemas/SA/2008-09/SA.xsd                          Released-Schema/2008-09/V1/SA.xsd
Schemas/SA/2009-09/SA.xsd                          Released-Schema/2009-09/V1/SA.xsd
Schemas/SA/2010-04/SA.xsd                          Released-Schema/2010-04/V1/SA.xsd
Schemas/SA/2010-06/SA.xsd                          Released-Schema/2010-06/V1/SA.xsd
Schemas/SA/2011-06/SA.xsd                          Released-Schema/2011-06/V1/SA.xsd
Schemas/SPW/2007-06/SPW.xsd                        Released-Schema/2007-06/V2/SPW.xsd
Schemas/SPW/2008-02/SPW.xsd                        Released-Schema/2008-02/V2/SPW.xsd
Schemas/SPW/2008-09/SPW.xsd                        Released-Schema/2008-09/V1/SPW.xsd
Schemas/SPW/2009-09/SPW.xsd                        Released-Schema/2009-09/V1/SPW.xsd
Schemas/SPW/2010-04/SPW.xsd                        Released-Schema/2010-04/V1/SPW.xsd
Schemas/SPW/2010-06/SPW.xsd                        Released-Schema/2010-06/V1/SPW.xsd
Schemas/SPW/2011-06/SPW.xsd                        Released-Schema/2011-06/V1/SPW.xsd
Schemas/STD/2007-06/STD.xsd                        Released-Schema/2007-06/V2/STD.xsd
Schemas/STD/2008-02/STD.xsd                        Released-Schema/2008-02/V2/STD.xsd
Schemas/STD/2008-09/STD.xsd                        Released-Schema/2008-09/V1/STD.xsd
Schemas/STD/2009-09/STD.xsd                        Released-Schema/2009-09/V1/STD.xsd
Released-Schema: Remove minor schema versions

If a directory contains V1 and V2 schemas, the V1 directory has
been removed.  The content of the remaining single V1 or V2
directory has been moved up one level, and the directory removed.
specification/test: Use new internal schema locations
validator/Backend: Use correct external schema locations
validator/WebApp/schema: Use correct external schema locations

This is a duplicate copy of validator/Backend.  Could this
duplication be removed?
tools/OmeroJava/test: Use new internal schema locations
xsd-fu: Use new internal schema locations
specification/Samples: Use new internal schema locations
Schemas: Remove HTML content

These will be replaced with automatically-generated content.
specification: Add publish script to generate the web content

Remove non-schema content of Schemas directory, and add to
Release-Schema for publishing.  publish script will generate
the web content in a "published" directory from the Legacy
and Release-Schema directories and dynamically generate
index.html pages for each directory.
specification/Samples: Use new internal schema locations (2)
Update 2012 samples (including Modulo) See #10044
Updating FLIM to include unit value