Update ToDos
Clean up some FindBugs & PMD errors/warnings
Merge branch 'findbugs' into develop

Conflicts:
	src/main/java/edu/isi/karma/cleaning/PartitionClassifier.java
	src/main/java/edu/isi/karma/geospatial/WorksheetToFeatureCollection.java
	src/main/java/edu/isi/karma/model/serialization/Repository.java
	src/main/java/edu/isi/karma/modeling/semantictypes/sl/RegexFeatureExtractor.java
	src/main/java/edu/isi/mediator/rdf/RDFGenerator.java
Ignore logs