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1. Commits on Mar 29, 2016

   • Ugly, basic MMTF support in AtomCache

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2. Commits on Mar 24, 2016

   • [maven-release-plugin] prepare for next development iteration

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   • [maven-release-plugin] prepare release biojava-5.0.0-alpha2

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   • Updated pom to build off alpha2

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3. Commits on Mar 22, 2016

   • Update the decoder to work with the new interface

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   • Develop off the snaspshot.

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   • Build biojava against the alpha release of mmtf

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4. Commits on Mar 21, 2016

   • Merge remote-tracking branch 'fork/mmtf' into alt_loc_bonds

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   • Merge remote-tracking branch 'fork/entity_features' into alt_loc_bonds

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   • Alternate locations now contain all atoms in a group.

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5. Commits on Mar 17, 2016

   • Upstream refactoring of mmtf specification

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   • Updates to the biojava structure decoder due to an API change in the interrface

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   • Added a fairly poor and basic test

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   • Update to consider the new API versioning

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   • Updates to for the new mmtf format

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   • Minor

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   • Added a new MMTF parsing module in biojava

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6. Commits on Mar 15, 2016

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

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   • Updated test becuase we now consider non-polymeric compounds

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7. Commits on Mar 14, 2016

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

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   • Added a new test file for entity information

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8. 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.

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9. Commits on Mar 10, 2016

   • [maven-release-plugin] prepare for next development iteration

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   • [maven-release-plugin] prepare release biojava-4.2.0

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   • 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

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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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10. Commits on Mar 9, 2016

    • Merge branch 'master' into removeLoadChemCompInfo

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      josemduarte

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    • Docs

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    • Fixing issues with bonds in 3th3 and better logging

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    • More whitespace fixes

      sbliven

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    • Automatically adding missing @Override

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    • Converting initial spaces to tabs.

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