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JAL-2103 propagate inserts only used for reconstructing profile view, currently
[jalview.git] / src /
2016-05-13 Jim ProcterJAL-2103 propagate inserts only used for reconstructing... features/JAL-2103 tree | commitdiff
2016-05-13 Jim ProcterJAL-2103 always remove gaps from input sequence, then... tree | commitdiff
2016-05-12 Jim ProcterJAL-2103 patch routine for inserting gaps for hidden... tree | commitdiff
2016-05-12 Jim ProcterJAL-2103 typo and more explicit javadoc tree | commitdiff
2016-05-12 Jim ProcterJAL-2103 fallback to returning trimmed profile if full... tree | commitdiff
2016-05-12 Jim ProcterJAL-2103 - refactored msa transformation routines and... tree | commitdiff
2016-05-10 Jim ProcterJAL-2103 don’t get full-width alignment if MSA based... tree | commitdiff
2016-05-10 Jim ProcterJAL-2103 extracted result processing code to allow... tree | commitdiff
2016-05-10 Jim ProcterJAL-2103 reinstate legacy behaviour (when full_MSA... tree | commitdiff
2016-05-10 Jim ProcterJAL-2103 proof of concept - patch to retrieve full... tree | commitdiff
2016-05-10 Jim ProcterJAL-1551 formatting tree | commitdiff
2016-05-09 gmungocJAL-2098 identify feature file with "<" in feature... tree | commitdiff
2016-05-09 gmungocJAL-2018 export graduated feature colours correctly tree | commitdiff
2016-05-06 Jim ProcterJAL-192 fix javadoc tree | commitdiff
2016-05-06 Jim ProcterJAL-192 JAL-2099 unused variables tree | commitdiff
2016-05-06 Jim ProcterJAL-1551 formatting tree | commitdiff
2016-05-06 Jim ProcterJAL-192 JAL-2099 reuse refactored scale code for wrappe... tree | commitdiff
2016-05-06 Jim ProcterJAL-192 JAL-2099 factored out calculation from renderin... tree | commitdiff
2016-05-06 Jim ProcterJAL-192 JAL-2099 factored out calculation from renderin... tree | commitdiff
2016-05-06 Jim ProcterJAL-192 JAL-2099 factored out calculation from renderin... tree | commitdiff
2016-05-06 Jim ProcterJAL-2100 centre triangles on hidden column vertical... tree | commitdiff
2016-05-06 Jim ProcterJAL-2100 optimisation tree | commitdiff
2016-05-06 Jim ProcterJAL-2100 triangles shown below in jvdesktop unwrapped... tree | commitdiff
2016-05-06 Jim ProcterJAL-192 patch off-by-one for pathological gap case tree | commitdiff
2016-05-05 Jim ProcterJAL-192 patch for off-by one and pathological case... tree | commitdiff
2016-05-04 gmungocJAL-2092 hide columns with/without feature tree | commitdiff
2016-05-04 gmungocMerge branch 'groovy/JAL-2074_upgradeto2.4.4' into... tree | commitdiff
2016-05-04 tcofoegbumerge tree | commitdiff
2016-05-04 tcofoegbuJAL-1563 JAL-2091 Added total result count to Uniprot... tree | commitdiff
2016-05-04 gmungocJAL-2090 removed test for Java > 1.1 to enable transparency tree | commitdiff
2016-05-03 gmungocJAL-2050 hide introns also when fetching Ensembl xrefs... tree | commitdiff
2016-05-03 tcofoegbuJAL-2091 disable pagination buttons during initialisation tree | commitdiff
2016-05-03 tcofoegbuJAL-1563 JAL-2091 Added generic pagination for FTS... tree | commitdiff
2016-05-02 tcofoegbuJAL-1563 Fixed Uniprot FTS result-set count error,... tree | commitdiff
2016-04-29 tcofoegbumerge tree | commitdiff
2016-04-29 tcofoegbuJAL-1563 house keeping/updated API doc for new method... merge/JAL-1563_uniprot-free-text-search tree | commitdiff
2016-04-29 tcofoegbuJAL-1563 Further increased swing timer for search textf... tree | commitdiff
2016-04-29 gmungocJAL-2051 better checking of retrieved / duplicated... tree | commitdiff
2016-04-29 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-04-29 Jim ProcterJAL-192 need visible and actual sequence limits for... tree | commitdiff
2016-04-29 Jim ProcterJAL-192 fix bounds when no hidden regions, and when... tree | commitdiff
2016-04-29 Jim ProcterJAL-192 scale origin relative to start of reference... tree | commitdiff
2016-04-29 Jim ProcterJAL-966 JAL-1553
 todo: remove UI components from Colum... tree | commitdiff
2016-04-29 Jim ProcterJAL-1551 formatting
 tree | commitdiff
2016-04-29 Jim ProcterJAL-192 ‘efficiently’ locate visible bounds for a seque... tree | commitdiff
2016-04-29 Jim ProcterJAL-1551 formatting tree | commitdiff
2016-04-29 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-04-28 tcofoegbuJAL-1563 increased swing timer for search action from... tree | commitdiff
2016-04-28 gmungocJAL-2083 removed use of reflection for Groovy tree | commitdiff
2016-04-28 tcofoegbuJAL-1563 Implemented hack to make table both scrollable... tree | commitdiff
2016-04-27 tcofoegbuJAL-1563 Added Id (Uniprot Id) to the dynamic column... tree | commitdiff
2016-04-27 Jim ProcterJAL-192 fix off-by-one for alignment ruler with no... tree | commitdiff
2016-04-27 Jim ProcterJAL-192 show reference sequence position and residue... tree | commitdiff
2016-04-27 tcofoegbuJAL-1563 Added fix to prevent swing timer from reinitia... tree | commitdiff
2016-04-27 Jim ProcterJAL-1366 JAL-2086 reinstate bolding of reference sequence tree | commitdiff
2016-04-27 Jim ProcterJAL-2085 JAL-2086 fix hiddenRepSequence and new referen... tree | commitdiff
2016-04-27 tcofoegbuJAL-1563 Modified Uniprot data column configurations... tree | commitdiff
2016-04-27 tcofoegbure-enabled new uniprot sequence fetcher on spike branch tree | commitdiff
2016-04-26 Jim ProcterJAL-2079 fix broken cherry-pick conflict merge tree | commitdiff
2016-04-26 Jim ProcterMerge branch 'develop' of source.jalview.org/git/jalvie... tree | commitdiff
2016-04-26 Jim ProcterJAL-2079 use new service to retrieve Rfam Seed alignment tree | commitdiff
2016-04-26 Jim ProcterJAL-2079 disable RFAM(Full) source until we can retriev... tree | commitdiff
2016-04-26 Jim ProcterJAL-2079 update URL for RFAM and PFAM sources tree | commitdiff
2016-04-26 tcofoegbumerge tree | commitdiff
2016-04-26 Jim ProcterJAL-2079 allow prefix+<XFAMID>+suffix type URL signature tree | commitdiff
2016-04-26 tcofoegbuJAL-1563 reverted to old uniprot fetcher to enable... tree | commitdiff
2016-04-26 Jim ProcterJAL-2077 reinstate JAL-1554 fix for left-then-right... tree | commitdiff
2016-04-26 Jim ProcterJAL-2077 reinstate annotation label popup by handling... tree | commitdiff
2016-04-26 gmungocJAL-1981 catch any exception when setting QuaQua look... tree | commitdiff
2016-04-26 Jim ProcterMerge branch 'develop' into groovy/JAL-2074_upgradeto2.4.4 groovy/JAL-2074_upgradeto2.4.4 tree | commitdiff
2016-04-26 tcofoegbumerge tree | commitdiff
2016-04-26 tcofoegbuJAL-2071 improvement to get column data files as InputS... tree | commitdiff
2016-04-26 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-04-26 tcofoegbuJAL-2071 changed extension for data column config files tree | commitdiff
2016-04-26 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2016-04-26 tcofoegbuJAL-2071 resolved fts data column config file path... tree | commitdiff
2016-04-26 tcofoegbuJAL-2071 House keeping tree | commitdiff
2016-04-26 tcofoegbuJAL-2071 improvement to reduce webservice requests... tree | commitdiff
2016-04-25 Jim ProcterJAL-2074 disable security manager at start up re: lopic... tree | commitdiff
2016-04-25 tcofoegbudevelop merge tree | commitdiff
2016-04-25 tcofoegbudevelop merge tree | commitdiff
2016-04-25 tcofoegbuJAL-2071 added unit tests for FTSRestClient features/JAL-1563_uniprot-free-text-search tree | commitdiff
2016-04-25 gmungocJAL-1812 JAL-2068 only allow one Groovy console open... tree | commitdiff
2016-04-24 Jim ProcterJAL-1551 JAL-2077 formatting tree | commitdiff
2016-04-24 Jim ProcterJAL-2077 - reinstate popups on osx tree | commitdiff
2016-04-24 Jim ProcterMerge branch 'JAL-2075_features_hiddeng' into develop tree | commitdiff
2016-04-24 Jim ProcterJAL-2075 make GroovyConsole a singleton so tests requir... tree | commitdiff
2016-04-23 Jim ProcterJAL-2075 fix: use AlignmentView.getVisibleContigs and... tree | commitdiff
2016-04-23 Jim ProcterJAL-2075 findPosition for SeqCigar (with test) tree | commitdiff
2016-04-23 Jim ProcterJAL-2075 formatting tree | commitdiff
2016-04-22 tcofoegbuJAL-1563 JAL-2071 Update and completed implementation... tree | commitdiff
2016-04-22 tcofoegbuJAL-2071 further refactoring, optimisation, and house... tree | commitdiff
2016-04-22 gmungocJAL-1812 JAL-2068 add Run Groovy Script to AlignFrame... tree | commitdiff
2016-04-22 gmungocJAL-2068 code and test for case of minValue == maxValue tree | commitdiff
2016-04-22 gmungocJAL-2068 framework and example scripts for pluggable... tree | commitdiff
2016-04-22 gmungocJAL-2068 Javadoc added tree | commitdiff
2016-04-22 gmungocJAL-2068 redundant implements clauses removed tree | commitdiff
2016-04-22 gmungocJAL-2068 convenience helper method for graduated score... tree | commitdiff
2016-04-20 Jim Procterfix for JAL-2072 tree | commitdiff
2016-04-19 tcofoegbuJAL-2071 architectural improvement for Plugable Free... tree | commitdiff
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