Make maven-compiler fork property overrideable from command line

Bionimbus doesn't like it when the maven-compiler fork property is set to true. We have no idea why this is, but if the property is overriden it seems to work.
Merge pull request #149 from SeqWare/feature/pom-fix-for-bionimbus

Make maven-compiler fork property overrideable from command line
Add programmatic and CLI hooks for triggering the file report
Merge branch 'feature/trigger_file_report_via_ws' into feature/decider_new_study_report

Conflicts:
	seqware-common/src/main/java/net/sourceforge/seqware/common/metadata/MetadataDB.java
	seqware-common/src/main/java/net/sourceforge/seqware/common/metadata/MetadataNoConnection.java
Make minor modifications in order to make new deciders pass old set of tests

(We're going to need more to check the attribute functionality)