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Commits on Feb 8, 2017

• Merge branch 'upstream_master'

  emckee2006

  committed
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• Add in previously missed protein aliases...

  emckee2006

  committed
  246525b

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Commits on Nov 9, 2016

• Fix #596. Remove test for GenBank identifier parsing

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  sbliven

  committed
  837dc63

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Commits on Sep 14, 2016

• Also get short name when getting other protein aliases

  emckee2006

  committed
  9b0d208

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Commits on Aug 25, 2016

• Merge branch 'pr/44'

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  emckee2006

  committed
  c819e5a

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• add ability to pull gene and protein aliases from uniprot

  emckee2006

  committed
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Commits on Aug 23, 2016

• Merge pull request #555 from andreasprlic/master

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  sbliven

  authored
  715fce4

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Commits on Aug 21, 2016

• GenericInsdcHeaderFormat: Fixed formatting codes.

  andviane

  committed
  4ee01d4

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Commits on Aug 18, 2016

• making output less verbose

  andreasprlic

  committed
  56e81e6

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• setting default log level to warn

  andreasprlic

  committed
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• making output less verbose

  andreasprlic

  committed
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Commits on Aug 16, 2016

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

  

  Jenkins

  committed
  2a14437

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• [maven-release-plugin]prepare release biojava-5.0.0-alpha6

  

  Jenkins

  committed
  18dcaba

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• updating to latest version of Cobertura tests. Now can successfully run locally.

  andreasprlic

  committed
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Commits on Jul 4, 2016

• Merge pull request #525 from andreasprlic/master

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  josemduarte

  authored
  2fca095

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• Merge pull request #519 from DevFactory/release--inefficient-string-buffering-fix-1

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  josemduarte

  authored
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Commits on Jul 1, 2016

• Merge pull request #528 from DevFactory/release--toString()-should-never-be-called-on-a-String-object-fix-1

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  andreasprlic

  authored
  0d197bf

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• Update readme.md

  andreasprlic

  authored
  2fc8ad3

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• Cleanup - squid:S1858 - "toString()" should never be called on a String object

  

  Mohamed Ezzat

  committed
  082d860

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• pmd:InefficientStringBuffering - Inefficient String Buffering

  

  Mohamed Ezzat

  committed
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Commits on Jun 30, 2016

• #505 switching to https for all NCBI utils traffic.

  andreasprlic

  committed
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• #505 switching to https for all NCBI utils traffic.

  andreasprlic

  committed
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Commits on Jun 27, 2016

• Normalize percentage of identity by the length without gaps #521

  lafita

  committed
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Commits on Jun 24, 2016

• Implement tests for new utility methods in sequence objects #491

  lafita

  committed
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• Method for total gapped positions and coverage in aligned sequences

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  lafita

  committed
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• Method for percentage of identity of a sequence pair #491

  lafita

  committed
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Commits on Jun 16, 2016

• squid:S2272 - "Iterator.next()" methods should throw "NoSuchElementException"

  

  Mohamed Ezzat

  committed
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Commits on Jun 15, 2016

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

  

  Jenkins

  committed
  34b2bf9

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

  

  Jenkins

  committed
  de01d08

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• squid:S2063 - Comparators should be Serializable

  

  Mohamed Ezzat

  committed
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Commits on Jun 10, 2016

• squid:S2130 - Parsing should be used to convert Strings to primitives

  

  Mohamed Ezzat

  committed
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Commits on Jun 9, 2016

• Merge pull request #499 from DevFactory/release--primitives-should-not-be-boxed-just-for-String-conversion-fix-1

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  andreasprlic

  authored
  1d874f1

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Commits on Jun 5, 2016

• squid:S2131 - Primitives should not be boxed just for String conversion

  

  Mohamed Ezzat

  committed
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Commits on Jun 4, 2016

• squid:S1197 - Array designators should be on the type, not the variable

  

  Mohamed Ezzat

  committed
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Commits on Jun 3, 2016

• squid:S1125 - Literal boolean values should not be used in condition expressions

  

  Mohamed Ezzat

  committed
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