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1. Commits on Jan 3, 2025

   • Javadoc fix: all error in alignment module

     josemduarte

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2. Commits on Jun 12, 2024

   • Fix issue s1319 Declarations should use Java collection interfaces on biojava-core and dependencies

     jlerbsc

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3. Commits on Apr 18, 2024

   • Fix sonar issue S2293 Replace the type specification in this constructor call with the diamond operator ('<>')

     jlerbsc

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4. Commits on Feb 26, 2024

   • fix: issue #1081 Sonar S1132 Strings literals should be placed on the left side when checking for equality

     jlerbsc

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5. Commits on Jun 27, 2023

   • Sonar S2129 Constructors should not be used to instantiate 'String', 'BigInteger', 'BigDecimal' and primitive-wrapper classes (Issue #1066)

     jlerbsc

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6. Commits on May 21, 2023

   • Fix Sonar S1130 throws declarations should not be superfluous

     jlerbsc

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7. Commits on Jul 26, 2022

   • Fix pointers[y] is null error

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     aegugup

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8. Commits on Oct 21, 2021

   • Unifying the way ALHOSSARY is written across different platform

     aalhossary

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9. Commits on Jan 3, 2019

   • Automatically convert spaces to tabs

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     sbliven

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10. Commits on Mar 12, 2018

    • Removing deprecations from v4

      josemduarte

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11. Commits on Sep 8, 2016

    • Remove some unimplemented methods in phylo

      lafita

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    • Merge alignment and phylo modules #413

      lafita

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12. Commits on Jul 1, 2016

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

      

      Mohamed Ezzat

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13. Commits on Jun 16, 2016

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

      

      Mohamed Ezzat

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14. Commits on Jun 15, 2016

    • squid:S2063 - Comparators should be Serializable

      

      Mohamed Ezzat

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15. Commits on Apr 24, 2016

    • squid:S2178 - Short-circuit logic should be used in boolean contexts

      

      Mohamed Ezzat

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16. Commits on Mar 10, 2016

    • Light cleanup:

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      sbliven

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    • Running spacestotabs on recent changes

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      sbliven

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17. Commits on Mar 9, 2016

    • Merge branch 'master' into removeLoadChemCompInfo

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      josemduarte

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    • Removing unnecessary casts

      sbliven

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    • More whitespace fixes

      sbliven

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    • Converting initial spaces to tabs.

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      sbliven

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    • Remove trailing whitespace globally from .java files

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      sbliven

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    • Update to remove docstring

      abradle

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    • Merge remote-tracking branch 'upstream/master' into removeLoadChemCompInfo

      josemduarte

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18. Commits on Mar 8, 2016

    • Fixing a few bugs that arose after loadChemCompInfo removal, #426

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      josemduarte

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19. Commits on Mar 7, 2016

    • Updates to make serializable for Spark

      abradle

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20. Commits on Nov 17, 2015

    • Generalize the GuideTree calculation using phylo

      lafita

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21. Commits on Nov 12, 2015

    • Merge commit '248cc08c7fbbdc02249bcac0f10481127b7d3ac7'

      josemduarte

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22. Commits on Oct 6, 2015

    • Converting all line endings to Unix.

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      sbliven

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23. 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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24. Commits on Jan 30, 2015

    • Refactoring of all package names according to #245 #242 #240

      andreasprlic

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25. Commits on Jan 29, 2015

    • Ran Optimize Imports across the whole project.

      andreasprlic

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    • Major refactoring of package names in accordance with #245 #242 #240

      andreasprlic

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