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1. Commits on Jan 15, 2016

   • Merge pull request #373 from edlunde-dnastar/sites-fix

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     josemduarte

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   • Fix typo in GuideTreeTest

     lafita

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   • Fix broken GuideTreeTest

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     lafita

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   • Merge branch 'master' of https://github.com/biojava/biojava.git

     lafita

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   • Unskip phylo tests

     lafita

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   • Update forester to version 1.038

     lafita

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   • Clean up

     josemduarte

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   • Merge branch 'master' into sites-fix

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     larsonmattr

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   • Updated to use unit test for 1A4W

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   • Missing test tag, wasn't actually testing!

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   • Logging improvements

     josemduarte

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   • Fixing bug: alt locs weren't cloned. Added test for it

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   • More on #372

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2. Commits on Jan 14, 2016

   • Last commit (da1bdc75a859433652edea4283ee6812068b1f66) referred to #372

     josemduarte

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   • Fixing #72

     josemduarte

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   • Check for 0 length insCode string.

     

     Matt Larson

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   • Removed unused variable.

     

     Matt Larson

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   • Fix mmCIF sites parsing to reference pdbx_auth_ins_code, fix Site class to

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     Matt Larson

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   • Merge pull request #371 from abradle/master

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     andreasprlic

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   • Update gitignore to fit last commit

     

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   • Updated class to be serialzable for spark

     

     Anthony

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   • Fix broken tests in MultipleAlignmentScorer

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     lafita

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   • Add lectins as example of CECP multiple alignment

     lafita

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   • Fix bug in transformed Atoms from MStA

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     lafita

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   • Merge pull request #370 from lafita/phylo

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     lafita

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   • Merge branch 'master' into phylo

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3. Commits on Jan 13, 2016

   • Fixing #369, also removing some warnings

     josemduarte

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   • Removing unused code

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   • Adding NMR write/read mmcif test

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   • Adding test case for #368. Fixed also TestURLBasedFileParsing

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4. Commits on Jan 12, 2016

   • Fixing #368

     josemduarte

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   • Fixing build

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     sbliven

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   • Fixing version of protein-comparison-tool module

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     sbliven

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   • Bumping remaining maven dependencies

     sbliven

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   • Adding license to sub-poms

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