Merge pull request #5 from biojava/master

update to latest master branch
Merge pull request #63 from aalhossary/master

update my fork to latest Biojava version
Merge pull request #6 from biojava/master

updating My Fork to latest BioJava master
Stockholm Parser is stateless now (more tolerant but less robust)
added getBioSequences(boolean ignoreCase, String forcedSequenceType) to
force returned type to either PFAM or RFAM.

Signed-off-by: aalhossary <amr_alhossary@hotmail.com>
Merge pull request #64 from aalhossary/master

Merge pull request #6 from biojava/master