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JAL-1551 don't autoformat /* comments */
2015-12-22 gmungocJAL-1551 don't autoformat /* comments */
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2015-12-22 gmungocJAL-1421 parameterised map constructor used
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2015-12-22 gmungocJAL-653 encapsulate Strand, Attributes, Status of SequenceFe...
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2015-12-22 gmungocJAL-653 realise virtual mappings and align when adding...
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2015-12-22 gmungocJAL-391 new Calculate options to Reverse, Reverse Complement...
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2015-12-22 gmungocJAL-653 AlignedCodonFrame collections changed from...
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2015-12-22 gmungocJAL-653 set showSequenceFeatures=true on loading a...
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2015-12-22 gmungocJAL-653 GFF new/refactored helper classes
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2015-12-22 gmungocJAL-653 AlignedCodonFrame internal refactor, merge...
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2015-12-22 gmungocJAL-653 hold AlignedCodonFrame collections as list...
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2015-12-03 gmungocJAL-653 code tidy / tests for 'realise gff mappings'
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2015-12-03 gmungocJAL-653 handle reverse strand mapping in SearchResults...
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2015-12-03 gmungocJAL-653 mappings always reside on the dataset alignment...
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2015-12-03 gmungocJAL-653 handle reverse strand mappings also
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2015-11-30 gmungocJAL-1421 generics loop syntax; 'bug?' comment added
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2015-11-30 gmungocJAL-653 test for 'resolving GFF mappings to sequences...
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2015-11-30 gmungocJAL-653 small comment change only
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2015-11-30 gmungocJAL-652 refactored to remove one method
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2015-11-30 gmungocJAL-653 (experimental) 'realise' dummy sequences in...
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2015-11-30 gmungocJAL-1980 check for null alignment; JAL-1551 @Override...
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2015-11-30 gmungocJAL-653 (experimental) methods to resolve dummy to...
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2015-11-30 gmungocJAL-1270 constructor test added
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2015-11-30 gmungocJAL-653 getStrand javadoc/refactor/test
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2015-11-30 gmungocJAL-1421 use generics JAL-1551 @Override annotations...
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2015-11-30 gmungocJAL-1270 constructor tests added, compiler warnings...
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2015-11-30 gmungocJAL-652 further refactoring / tests
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2015-11-30 gmungocJAL-652 correct case for test file name
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2015-11-30 gmungocJAL-653 MapList constructor merges any contiguous ranges
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2015-11-23 gmungocJAL-653 Gff tests moved back in to FeaturesFileTest
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2015-11-22 gmungocJAL-653 test for 'groups file' and mixed Jalview/GFF
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2015-11-21 gmungocJAL-1968 remove feature links
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2015-11-21 gmungocJAL-653 JAL-1968 FeaturesFile now handles Jalview or...
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2015-11-17 gmungocJAL-1961 update link to GFF2 spec
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2015-10-08 gmungocJAL-1544 typo fix
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2015-10-05 gmungocJAL-1812 set/return currentAlFrame for Groovy in headless...
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2015-10-05 gmungocJAL-1684 JAL-1452 new applet parameters defaultColourNuc
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2015-10-02 gmungocJAL-1815 restore split frame geometry including horizontal...
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2015-09-28 gmungocJAL-1909 repaint complementary alignment panel after...
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2015-09-25 gmungocJAL-1859 try hoverDelay of 0.1s in Jmol for more responsive...
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2015-09-25 gmungocJAL-1815 restore split frame geometry correctly including...
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2015-09-24 gmungocJAL-1905 parse url including & correctly
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2015-09-24 gmungocJAL-1904 parse feature file colours on to alignment...
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2015-09-22 gmungocJAL-1894 release notes updated
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2015-09-22 gmungocJAL-1424 tidied output
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2015-09-22 gmungocMerge branch 'develop' of https://source.jalview.org...
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2015-09-22 gmungocJAL-1859 adding "set hoverDelay 0.001;" to Jmol startup...
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2015-09-21 gmungocJAL-1892 duplicate entry removed
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2015-09-21 gmungocJAL-1799 update height of annotation labels to match...
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2015-09-21 gmungocJAL-1892 Spanish additions for Jalview 2.9
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2015-09-21 gmungocJAL-1152 set initial state of show alignment/sequence...
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2015-09-21 gmungocJAL-1152 small change to match revised annotation sorting...
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2015-09-21 gmungocJAL-1619 obsolete help removed
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2015-09-18 gmungocJAL-1270 disable test as not really a test and goes...
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2015-09-18 gmungocMerge branch 'develop' of https://source.jalview.org...
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2015-09-18 gmungocJAL-1805 typo corrected
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2015-09-18 gmungocJAL-1788 typos corrected
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2015-09-18 gmungocJAL-1788 broken href fixed
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2015-09-18 gmungocJAL-1859 reinstated full path to file option (for local...
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2015-09-18 gmungocJAL-1424 Ant task to report missing language bundle...
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2015-09-16 gmungocJAL-1882 variable renamed to avoid confusion with member...
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2015-09-16 gmungocMerge branch 'develop' of https://source.jalview.org...
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2015-09-16 gmungocJAL-1885 small fix to isVersionStringLaterThan plus...
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2015-09-16 gmungocJAL-1684 typo correction
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2015-09-16 gmungocJAL-1859 removed temporary test copy of pdb file
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2015-09-16 gmungocJAL-1859 refactor duplicated code to new HttpUtils...
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2015-09-16 gmungocJAL-1859 code tidy, remove 'absolute URL' option
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2015-09-16 gmungocJAL-1859 working variable to aid inspection in debugger
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2015-09-16 gmungocJAL-1859 try 1gaq.txt in /lang so it is in the built jar
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2015-09-16 gmungocJAL-1859 debug logging removed
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2015-09-16 gmungocJAL-1859 revert to resolving full path to PDB file
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2015-09-16 gmungocJAL-1859 refactor addProtocol, setProtocolState as...
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2015-09-16 gmungocJAL-1859 temporary debug output
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2015-09-15 gmungocJAL-1859 use unresolved PDB filename
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2015-09-15 gmungocJAL-1859 strip file name from applet documentbase
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2015-09-15 gmungocJAL-1859 refactoring / debugging added
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2015-09-14 gmungocJAL-1865 fixed so initial state of annotation sort...
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2015-09-14 gmungocJAL-1851 add retrieved sequence's start (-1) to match...
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2015-09-14 gmungocJAL-1880 updated mapping tests to ensure they handle...
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2015-09-14 gmungocJAL-1270 test added for separatorListToArray
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2015-09-14 gmungocJAL-1880 handle sequence offsets properly when mapping...
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2015-09-14 gmungocJAL-1684 align added alignment to match original in...
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2015-09-14 gmungocJAL-1684 align added alignment to match original in...
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2015-09-14 gmungocJAL-1684 ensure cDNA placed above protein in SplitFrame
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2015-09-09 gmungocJAL-857 debug=true for Jmol example diagnosis
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2015-09-09 gmungocJAL-857 added debug output to track down document base...
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2015-09-09 gmungocJAL-1619 update applet.currentAlignFrame on any menu...
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2015-09-09 gmungocJAL-1619 'align protein as cDNA' now leaves unmapped...
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2015-09-08 gmungocMerge branch 'develop' of https://source.jalview.org...
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2015-09-08 gmungocJAL-1859 debug output of pdb mappings (mine and SSMs)
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2015-09-08 gmungocJAL-1859 reverted to signed JalviewApplet.jar!
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2015-09-08 gmungocMerge branch 'develop' of https://source.jalview.org...
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2015-09-08 gmungocJAL-1859 Jmol applet black background; fix _jvmols...
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2015-09-07 gmungocJAL-1859 Jmol linked applet updated to use Jmol2.js
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2015-09-07 gmungocJAL-1636 translate stop codon as '*', mouseover * as...
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2015-09-07 gmungocMerge branch 'develop' of https://source.jalview.org...
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2015-09-07 gmungocJAL-1152 check 'autocalculated' not 'null sequenceRef...
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2015-09-04 gmungocJAL-1859 jmolFindTarget not JmolFindTarget
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2015-09-04 gmungocJAL-1859 embedded Jmol applet example updated for Jmol...
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2015-09-03 gmungocJAL-1859 removed unneeded dependency on package not...
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2015-09-03 gmungocMerge branch 'develop' of https://source.jalview.org...
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