Merge pull request #5 from biojava/master

update to latest master branch
stable release branch is now 3.0.7
adding link to emerging tutorial
Merge pull request #1 from biojava/master

Update my fork with latest changes
Clean up the majority of compile warnings
remove unneeded imports
Merge pull request #58 from emckee2006/master

Clean up compile warnings
Fixed parsing of REMARK 350 records in PDB files (Biological Assemblies)
to accommodate various format inconsistencies. Also refactored
PDBBioAssemblyParser to create bioassemblies where the models and chains
are ordered in the same way as in the PDB bioassembly files (xxxx.pdb1,
etc.).
Merge branch 'master' of https://github.com/biojava/biojava
Fixed TestHardBioUnits test. Removed print statement from
PDBBioAssemblyParser.
Merge pull request #59 from pwrose/master

Fixed TestHardBioUnits test. Removed print statement from
Merge pull request #2 from biojava/master

Synch to latest head
Convert %i (which formatter doesn't like) to %d for integers
Merge pull request #60 from emckee2006/master

Fix defect in format strings for formatter in GenBank Writer
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
Merge branch 'master' of github.com:biojava/biojava