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Commits on Nov 30, 2016

• addressing requested changes re. throwing exceptions.

  andreasprlic

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• moving to Java 7

  andreasprlic

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• now also accepting old header line

  andreasprlic

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• #610 switching test to junit version 4

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Commits on Nov 29, 2016

• creating local dir, if it does not exist.

  andreasprlic

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• fix for #610

  andreasprlic

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Commits on Aug 18, 2016

• making output less verbose

  andreasprlic

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• setting default log level to warn

  andreasprlic

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Commits on Aug 8, 2016

• new utility classes to detect if a Group is polymeric, an amino acid, or a nucleotide group.

  andreasprlic

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Commits on Jun 15, 2016

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

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  andreasprlic

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• some formatting improvements.

  andreasprlic

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

  

  Jenkins

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• [maven-release-plugin]prepare release biojava-5.0.0-alpha4

  

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• Merge branch 'bugfixes-4.2'

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

  

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• [maven-release-plugin]prepare release biojava-4.2.2

  

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• [maven-release-plugin] rollback the release of biojava-4.2.2

  

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

  

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• [maven-release-plugin]prepare release biojava-4.2.2

  

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  committed
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• [maven-release-plugin] rollback the release of biojava-4.2.2

  

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• [maven-release-plugin]prepare release biojava-4.2.2

  

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Commits on Jun 14, 2016

• merging in latest ptm modifications from master branch

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  committed
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• Updating ptm list.

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• Added list of chromophores to ptm_list.xml file, updated unit tests

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Commits on Jun 10, 2016

• Reverting some changes to be compliant with the "old" way of doing chain IDs.

  andreasprlic

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• Merge pull request #502 from andreasprlic/master

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  josemduarte

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• merging in updated ptm_list.xml

  andreasprlic

  committed
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• merging in updated ptm_list.xml

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• merging in updated ptm_list.xml

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• distance have to be looked up by element name, not atom name

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• Adds a new definitions file so the code can correctly detect Metal bonds. Slightly more efficient representation of standard amino acids.

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• merging in fixes related to PTMs into bug fix branch

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• update for 2VH3 TY2

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• updating legacy chemical component and atom names to current naming conventions.

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• distance have to be looked up by element name, not atom name

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