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Commits on Feb 24, 2016

• Merge remote-tracking branch 'upstream/master'

  josemduarte

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• Fixing issues arising after making DownloadChemCompProvider the default

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  josemduarte

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Commits on Feb 19, 2016

• Add method to allow pulling protein aliases from UniProt records

  emckee2006

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Commits on Feb 3, 2016

• FastaWriter was throwing Exception instead of IOException

  lafita

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Commits on Jan 29, 2016

• Adding serializable interface to a few classes

  josemduarte

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Commits on Jan 28, 2016

• A bunch of small fixes, mostly docs and logs

  josemduarte

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Commits on Jan 26, 2016

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

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  andreasprlic

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Commits on Jan 25, 2016

• Merge pull request #363 from emckee2006/master

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  andreasprlic

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• getting Junit test to work on installations that have empty spaces in directory names

  andreasprlic

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Commits on Jan 19, 2016

• Adding URLIdentifier for files and URLs

  sbliven

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Commits on Jan 11, 2016

• Merge branch 'pr/38'

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  emckee2006

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• Change AbstractFeature Qualifiers to a key:Array from key:value #302

  emckee2006

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Commits on Dec 5, 2015

• fix #344

  andreasprlic

  committed
  cf1c735

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• test case for #344

  andreasprlic

  committed
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• adding a couple of demo files to the core project

  andreasprlic

  committed
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Commits on Dec 3, 2015

• Fixing some minor warnings

  sbliven

  committed
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Commits on Dec 1, 2015

• Adding biojava license statements

  sbliven

  committed
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Commits on Nov 12, 2015

• Fixing broken path

  josemduarte

  committed
  4045e7a

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• Merge commit '248cc08c7fbbdc02249bcac0f10481127b7d3ac7'

  josemduarte

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Commits on Nov 10, 2015

• Fixing #344

  

  Jose Duarte

  committed
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Commits on Nov 1, 2015

• Increased type checking.

  paolopavan

  committed
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Commits on Oct 31, 2015

• Changed logger to slf4j

  paolopavan

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Commits on Oct 30, 2015

• IOEs in IOUtils now thrown and not repacked into a RE, #111.

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  josemduarte

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Commits on Oct 9, 2015

• Refactoring proposed by Jose Manuel Duarte to separate this module from the old implementation in org.biojava.nbio.genome.query.BlastXMLQuery.

  paolopavan

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Commits on Oct 6, 2015

• Converting all line endings to Unix.

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  sbliven

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• Added setter method for parsing fine tuning configuration.

  paolopavan

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Commits on Oct 5, 2015

• Change in the way equals() is evaluated for Results, Hits, Hsps.Modified tests accordingly.

  paolopavan

  committed
  26eaebf

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• bugfix

  paolopavan

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Commits on Sep 28, 2015

• Tests enhancement.

  paolopavan

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Commits on Sep 24, 2015

• Better exception handling.

  paolopavan

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Commits on Sep 22, 2015

• Modified method with more appropriate access level.

  paolopavan

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Commits on Sep 17, 2015

• Merge branch 'API_variation' into SearchIO_branch

  paolopavan

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• Slight API change.

  paolopavan

  committed
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Commits on Sep 16, 2015

• Massive refactoring: moved alignment data structures from biojava-alignment to biojava-core.

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  paolopavan

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Commits on Sep 9, 2015

• Deleted test files that can be delegated to superclass

  paolopavan

  committed
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