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1. Commits on Mar 24, 2016

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

     abradle

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

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2. Commits on Mar 10, 2016

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

     andreasprlic

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

     andreasprlic

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3. Commits on Mar 9, 2016

   • More whitespace fixes

     sbliven

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   • Removing template messages

     sbliven

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   • Remove trailing whitespace globally from .java files

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     sbliven

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   • Running addlicense.sh

     sbliven

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4. Commits on Feb 3, 2016

   • Handle symmetry refinement Exceptions

     lafita

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   • Fix bugs in Phylogenetic tree display

     lafita

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   • New feature, show phylogenetic trees for Multiple Structure Alignemnts

     lafita

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   • FastaWriter was throwing Exception instead of IOException

     lafita

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5. Commits on Jan 26, 2016

   • Making demos compile but not package into jar #387

     josemduarte

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6. Commits on Jan 15, 2016

   • Unskip phylo tests

     lafita

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7. Commits on Jan 14, 2016

   • Merge branch 'master' into phylo

     lafita

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8. Commits on Jan 12, 2016

   • Adding license to sub-poms

     sbliven

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9. Commits on Dec 1, 2015

   • Unifying forester version to main pom.xml

     sbliven

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10. Commits on Nov 18, 2015

    • Ignore tests until forester update

      lafita

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    • Tests failing until forester version updated

      lafita

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11. Commits on Nov 17, 2015

    • More Testing for trees

      lafita

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    • Implement fractional dissimilarity score

      lafita

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    • Create a Test for the distance tree evaluation

      lafita

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    • Switch phylo and alignment dependencies back

      lafita

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    • Function to clone forester DistanceMatrix

      lafita

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    • Fix bug in distance matrix calculation

      lafita

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    • Create a Test for Wrapper functions

      lafita

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12. Commits on Nov 16, 2015

    • Implement the structural distance in phylo

      lafita

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    • Fix bug with the ConcurrencyTools usage

      lafita

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    • Update path to Substitution Matrices (now in core)

      lafita

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    • Reshape the TreeConstructor class

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      lafita

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    • Create methods for distance matrix calculation

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      lafita

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    • Rename the Tree Evaluator, specific for distance trees

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      lafita

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    • TreeConstructionAlgorithm renamed

      lafita

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    • Remove unused classes

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      lafita

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    • Create TreeConstructorType (replace TreeType)

      lafita

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