New classes that will be related to VariantEffect
New VariantEffect beans filled with constructors, getters and setters
Biodata tools adapted to new VariantEffect classes
Included all members of classes related to VariantEffect
Initialization of ConsequenceType numerical attributes to -1
Merging branch 'develop' into 'feature/consequence-type'
VariantEffect renamed to VariantAnnotation, ConsequenceType renamed to VariantEffect, new class Gene
Set of genes added to VariantAnnotation
Added opencb.datastore to pom.xml
The VariantGeneAnnotator retrieves data from Cellbase instead of Variant Effect'
Fixed bug in VariantGeneAnnotator
models: core, pathway, protein and variation models from Cellbase have been added
models: Old GenomicVariantEffectPredictor class removed
formats: UniprotParser added
formats: Graph format Dot has been added
models: Field _id removed from Gene collection and DAMAGING renamed to PROBABLY_DAMAGING in ProteinSubstitutionScores
Migrated Alignment Model from java-common-libs to BioData. Removed picard dependency.

SAMRecord to Alignment conversion and picard dependency will be in formats.
Migrated Sam Alignments from java-common-libs to BioData.

Added AlignmentFactory for SAMRecord-Alignment conversions
Added AlignmnetHeader to replace SAMFileHeader
Merge branch 'develop' of https://github.com/opencb/biodata into develop
Merge branch 'develop' of https://github.com/opencb/biodata into develop
Merging branch 'develop' into 'feature/consequence-type'