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Commits on Mar 15, 2016

• Updates to the tests to fix for new manner of parsing entity

  abradle

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• Updated test becuase we now consider non-polymeric compounds

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Commits on Mar 14, 2016

• Updates to the Biojava code to include imporved handling of Entity information.

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  abradle

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• Added a new test file for entity information

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Commits on Mar 12, 2016

• Fixed a bug where nucleotide bonds were not being generated. Added a test to ensure nucleotide bonds are being generated.

  abradle

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Commits on Mar 10, 2016

• Light cleanup:

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  sbliven

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• Running spacestotabs on recent changes

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  sbliven

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• Run addlicense

  sbliven

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• Another serializable, we should revise at some point all

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  josemduarte

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• Fixing issue in cloning: was adding same group several times

  josemduarte

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Commits on Mar 9, 2016

• Merge branch 'master' into removeLoadChemCompInfo

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• Docs

  josemduarte

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• Fixing issues with bonds in 3th3 and better logging

  josemduarte

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• More whitespace fixes

  sbliven

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• Automatically adding missing @Override

  sbliven

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• Converting initial spaces to tabs.

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• Removing template messages

  sbliven

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• Remove trailing whitespace globally from .java files

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• Running addlicense.sh

  sbliven

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• Better docs for new FileParsingParam

  josemduarte

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• Better docs and an empty test

  josemduarte

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• Merge remote-tracking branch 'upstream/master' into removeLoadChemCompInfo

  josemduarte

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• Merge pull request #427 from abradle/master

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• Merge branch 'master' into removeLoadChemCompInfo

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Commits on Mar 8, 2016

• Fixing a few bugs that arose after loadChemCompInfo removal, #426

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  josemduarte

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• Fix PDBFileParser bug with missing trailing spaces.

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  sbliven

  committed
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• Fixed DBRef#toPDB() method to give 80 characters line

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  sbliven

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• Merge branch 'master' into removeLoadChemCompInfo

  josemduarte

  committed
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• "Fix" #88. Improve documentation with a warning about getSymmetryOrder

  sbliven

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• Merge remote-tracking branch 'biojava/master'

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• Honor prefixes for StructureNames

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• Tests pass now, except for TestLongPdbVsMmcif

  josemduarte

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• Some updates for when dealing with internal and not public chain ids as the primary id

  abradle

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• Removing loadChemCompInfo, some tests don't pass yet

  josemduarte

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• Better docs

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