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onbiojava-5.2.0

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Commits on Jan 3, 2019

• Merge pull request #821 from sbliven/spacestotabs

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• Merge pull request #820 from josemduarte/asaCalcPerformance

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  sbliven

  authored
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• Manually fix cases of space indentation identation found by

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  sbliven

  committed
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• Automatically convert spaces to tabs

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  sbliven

  committed
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• Remove trailing spaces from java files

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  sbliven

  committed
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Commits on Jan 2, 2019

• Run development/addlicense.sh

  sbliven

  committed
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• Fix test failures from merge

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  sbliven

  committed
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• Logging, docs and some minimal optimization

  josemduarte

  committed
  041482d

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• Fix compilation errors from merge

  sbliven

  committed
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• Merge branch 'bugfixes-4.2'

  sbliven

  committed
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• Tidying up

  josemduarte

  committed
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• Doing all neighbor indices upfront

  josemduarte

  committed
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• A test, demoing that SH actually performs much worse

  josemduarte

  committed
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• Neighbor indices now uses spatial hashing

  josemduarte

  committed
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Commits on Dec 29, 2018

• Finish previous hasty commit, adding RotationAxis methods

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  sbliven

  committed
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Commits on Aug 28, 2018

• Fixed part of a test and tagged it as Ignore

  josemduarte

  committed
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• Fixing issue #797 and better docs and naming

  josemduarte

  committed
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Commits on Jul 29, 2018

• Code Refactoring to minimize dublicate code

  MikkelVestergaard

  committed
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• Merge branch 'issue712'

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  committed
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Commits on Jul 28, 2018

• Implemented bond-cloning in group-elements

  MikkelVestergaard

  committed
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Commits on Jul 13, 2018

• Implementing @sbliven suggestions

  josemduarte

  committed
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Commits on Jun 24, 2018

• Fixing issue with duplicate altlocs in writing to mmcif. Improved docs.

  josemduarte

  committed
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• Some fixes in altloc test and 2 additions

  josemduarte

  committed
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Commits on Jun 18, 2018

• Revert fix for mmcif files without auth_seq_id column

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  sbliven

  committed
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Commits on Jun 15, 2018

• Fix test failure due to PDB change

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  sbliven

  committed
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• Fix test failure due to PDB change

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  sbliven

  committed
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Commits on Jun 14, 2018

• Fix NullPointer when restoring global state

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  sbliven

  committed
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• Add GlobalsHelper class to manage our global state

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  sbliven

  committed
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Commits on Jun 12, 2018

• Incorporating suggestions from @josemduarte

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  sbliven

  committed
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Commits on Jun 8, 2018

• Set and restore the ChemCompGroupFactory singleton

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  sbliven

  committed
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• Make tests for #703 fail with an assertion

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  sbliven

  committed
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Commits on Jun 4, 2018

• Add test for #703

  sbliven

  committed
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Commits on May 21, 2018

• Fix for #770, use LinkedHashMaps to keep order of biological assembly

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  committed
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Commits on May 16, 2018

• Revert "Fixes #771, commented out test case that fails due to PDB data error."

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  pwrose

  committed
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• Fixes #771, commented out test case that fails due to PDB data error.

  pwrose

  committed
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