Use filtering tokens that can be used with both Ant and Maven

This required using the 'replace' target in Ant instead of 'filter'.

Conflicts:

	ant/java.xml
Finish fixing up version token replacement

Version tokens are now defined exclusively in a version.properties file
that is accessed by FormatTools.  Maven and Ant can now both replace the
tokens in version.properties.  This is a lot more straightforward than
trying to convince Maven to copy source files to target/, replace tokens
in the copied source files, and then compile from the updated copies.

Conflicts:

	components/scifio/build.properties
	pom.xml
Use the jgit-buildnumber and gmaven plugins to set version information

Conflicts:

	pom.xml
Use token replacement to set the versions in cppwrap/*.cpp

Ant does not currently do the replacement for these files, since they
are outside of the src/ directory.  I'm not worrying about that for the
moment, though, since Ant can't build the *.cpp files anyway.

Conflicts:

	components/scifio/cppwrap/minimum_writer.cpp
	components/scifio/cppwrap/showinf.cpp
UpgradeChecker: catch NFE when parsing the current version
Final fixes to Maven version number population

This removes the jgit-buildnumber dependency in favor of just using
Groovy to do all of the hard work.  As with Ant, the exact tag name is
tried first, followed by a snapshot version based upon the last known
tag.  If the version number cannot be determined (e.g. 'git' is not in
the path), then "UNKNOWN" is used.

Conflicts:

	pom.xml
Fix resource filtering so that files end up in the correct place

*.properties files were previously copied under target/classes/src/
instead of target/classes/, which meant that the tests could not locate
them.
Force top-level Maven build to run as part of cppwrap
Make sure that filtering happens correctly in cppwrap build
One more resource copying fix for the scifio component build
Fix value of release.version

This needs to be hard-coded, otherwise the snapshot version will be set incorrectly.
Fix header includes for showinf.cpp

loci-legacy and scifio-devel are not components in 4.4.x, so loci-common is used instead.
Update POM files to fetch from/deploy to artifacts.openmicroscopy.org

Conflicts:

	components/loci-common/pom.xml
	components/scifio-devel/pom.xml
	components/turbojpeg/pom.xml
	pom.xml
Add pluginRepository entries so that cppwrap can be used
Search imagej.releases for the scijava parent POM
Merge pull request #811 from melissalinkert/maven-fixes

Set version information in Maven