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Commits on Mar 18, 2016

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

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• [maven-release-plugin] prepare release biojava-5.0.0-alpha1

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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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• Running spacestotabs on recent changes

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Commits on Mar 9, 2016

• Merge branch 'master' into removeLoadChemCompInfo

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• Removing unnecessary casts

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• More whitespace fixes

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• Removing unused imports

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• Automatically adding missing @Override

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• Converting initial spaces to tabs.

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• Removing OpenAstexViewerImpl

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• Removing template messages

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• Remove trailing whitespace globally from .java files

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Commits on Mar 8, 2016

• Merge branch 'master' into removeLoadChemCompInfo

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  committed
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• Merge remote-tracking branch 'biojava/master'

  sbliven

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• Removing loadChemCompInfo, some tests don't pass yet

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Commits on Mar 7, 2016

• Final CeSymm display options before release

  lafita

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Commits on Mar 4, 2016

• Fix #385. Support BIO: identifiers

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Commits on Mar 3, 2016

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

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• Use homologous structure derived matrix HSDM for msa tree building

  lafita

  committed
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• Correct significance criteria for internal symmetry

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Commits on Mar 1, 2016

• fixing broken demo

  andreasprlic

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• this example was using the wrong Parameter class. fixed

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Commits on Feb 10, 2016

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

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• adding utility method

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Commits on Feb 5, 2016

• Change substitution matrix to SDM for symmetry phylogeny

  lafita

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• Print a summary of internal symmetry in Jmol display

  lafita

  committed
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Commits on Feb 4, 2016

• Use HSDM substitution matrix instead of BLOSUM45 in MSA trees

  lafita

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• Change all references to Subunits to Repeats for consistency in CeSymm

  lafita

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Commits on Feb 3, 2016

• Fix bugs in Phylogenetic tree display

  lafita

  committed
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• Superimpose freely at the end in case more than one symmetry level

  lafita

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• New feature, show phylogenetic trees for Multiple Structure Alignemnts

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  committed
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Commits on Feb 1, 2016

• Merge branch 'master' into cesymm

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