Test
porting OBO file parser from BioJava 1 to BioJava 3 #33
adding a simple junit test
Added bond generation for mmCIF files
Merging with trunk
Merge branch 'master' of github.com:biojava/biojava
unit test to reproduce #106
only update original seqres groups, when matching worked without problems
more refactoring. Taking out BioJava1 change model. fixes #33 and #105
fixing another problem with seqres and ATOM mapping #106
 need to make sure the setup is called before every test, if run the first time, otherwise problems with seqres alignment #106
making sure we build a jar for this module
Implemented full treatment of xtal info and experimental technique
- some reshuffling of fields in PDBHeader and PDBCrystallographicInfo
- now xtal info is parsed from both PDB and mmCIF (before only from PDB)
- remove deprecated method getHeader/setHeader in Structure
- some additions to the Structure interface e.g. isCrystallographic
- StructureImpl.isNmr() is reimplemented to strictly signal NMR
structures (as the docs say), use nrModels() for multimodels
- a few deprecations
Missing class in last commit
Using reflection for all class names in mmcif parser
Added test for crystal info and some small fixes
Reducing verbosity of test, switch to full output setting VERBOSE=true
Updating integration tests to latest structure commits
Test is now completely silent
New test for raw pdb files + fixes to isNmr heuristics