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1. Commits on Jul 8, 2017

   • Last travis-CI build got cancelled. Re-push to trigger it again.

     arojnuckarin

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   • Revert to old behavior where process(int) return null on end-of-file.

     arojnuckarin

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   • Attempt to fix issue #659 - Error parsing FASTA in multiple passes

     arojnuckarin

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2. Commits on Jun 13, 2017

   • Add @since 5.0.0 annotation into AbstractReference, GenbankReference,

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     jimty0511

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3. Commits on Jun 7, 2017

   • Added Javadoc into AbstractSequence.

     jimty0511

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   • 1. Added Javadoc into AbstractReference.

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     jimty0511

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   • 1. Added a new folder into main/java/org/biojava/nbio/core/sequence package

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     jimty0511

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4. Commits on Jun 2, 2017

   • Added List<String> of comments with getter and setter into AbstractSequence.java;

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     jimty0511

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   • Merge pull request #666 from psoares/master

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     josemduarte

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5. Commits on May 31, 2017

   • Removed unused import.

     psoares

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   • Fix for #663 and some code cleanup.

     psoares

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   • Merge pull request #660 from heuermh/read-rna-sequences

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     josemduarte

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6. Commits on Apr 27, 2017

   • Add methods for reading RNA sequences.

     heuermh

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7. Commits on Apr 26, 2017

   • Changing all line ending to unix (to match .gitattributes)

     sbliven

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8. Commits on Apr 13, 2017

   • Exposing alignment mappings to be able to map query sequence to target sequence

     valasatava

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9. Commits on Apr 4, 2017

   • Refactoring FileDownload util to be a part of biojava-core project

     valasatava

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10. Commits on Apr 3, 2017

    • Adding a method to check whether an array of sequences contains at least two sequences of an equal length

      valasatava

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11. Commits on Mar 28, 2017

    • hashCode() added for all the classes where added an equals()

      valasatava

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    • Merge branch 'sequenceEquals' of https://github.com/valasatava/biojava into sequenceEquals

      valasatava

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    • hashCode added to SequenceFileProxyLoader class

      valasatava

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    • adding a sequence.equals(Sequence) and hashCode class to sequences.

      valasatava

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    • changing equals(Sequence) method signature to equals(Object)

      andreasprlic

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    • adding a sequence.equals(Sequence) and hashCode class to sequences.

      valasatava

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12. Commits on Feb 8, 2017

    • Merge branch 'upstream_master'

      emckee2006

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    • Add in previously missed protein aliases...

      emckee2006

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13. Commits on Nov 9, 2016

    • Fix #596. Remove test for GenBank identifier parsing

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      sbliven

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14. Commits on Sep 14, 2016

    • Also get short name when getting other protein aliases

      emckee2006

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15. Commits on Aug 25, 2016

    • Merge branch 'pr/44'

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      emckee2006

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    • add ability to pull gene and protein aliases from uniprot

      emckee2006

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16. Commits on Aug 23, 2016

    • Merge pull request #555 from andreasprlic/master

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      sbliven

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17. Commits on Aug 21, 2016

    • GenericInsdcHeaderFormat: Fixed formatting codes.

      andviane

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18. 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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    • making output less verbose

      andreasprlic

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19. Commits on Aug 16, 2016

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

      andreasprlic

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