exampleFeatures.txt

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JAL-3210 Barebones gradle/buildship/eclipse. See README

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JAL-3026 reinstated deleted file

JAL-3032 JTable work; JSUtil.jQuery object; drag-drop; reflect.Constructor; adds core:"NONE" to {project}/template.html

fixes drag-drop for first call in Firefox/win

fixes java.lang.reflect.Constructor for Integer

Remove the core:"NONE" if you do not want to see all the core files

separately.

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JAL-1793 update spike branch to latest

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JAL-2843 example filters added

JAL-2738 copy to spikes/mungo

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JAL-2500 JAL-2365 feature colour "gray" _not_ "lightgray" for backwards compatibility!!

JAL-2500 JAL-2365 lightGray changed to lightgray for backwards compatibility!

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JAL-2500 JAL-2365 lightGray changed to lightgray for backwards compatibility! JAL-1551 source formatting definition for eclipse

JAL-2500 JAL-2365 lightGray changed to gray in example file for backwards compatibility

JAL-2500 JAL-2365 lightGray changed to gray in example file for backwards compatibility

JAL-2631 make minimum colour not white

JAL-2631 add graduated colour kdH features to example

JAL-2446 merged to spike branch

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JAL-2316 Changes following review.

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JAL-2234 FER1_ARATH renamed FER2_ARATH and vice versa

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Merge branch 'develop' into features/JAL-2094_colourInterface

Conflicts:

src/jalview/api/FeatureColourI.java

src/jalview/api/FeatureRenderer.java

src/jalview/appletgui/FeatureColourChooser.java

src/jalview/appletgui/FeatureRenderer.java

src/jalview/appletgui/FeatureSettings.java

src/jalview/appletgui/SeqCanvas.java

src/jalview/appletgui/SequenceRenderer.java

src/jalview/appletgui/UserDefinedColours.java

src/jalview/ext/ensembl/EnsemblGene.java

src/jalview/gui/FeatureColourChooser.java

src/jalview/gui/FeatureRenderer.java

src/jalview/gui/FeatureSettings.java

src/jalview/gui/Jalview2XML.java

src/jalview/gui/SeqCanvas.java

src/jalview/gui/TreeCanvas.java

src/jalview/io/FeaturesFile.java

src/jalview/io/PDBFeatureSettings.java

src/jalview/renderer/seqfeatures/FeatureRenderer.java

src/jalview/schemes/FeatureColour.java

src/jalview/schemes/FeatureColourAdapter.java

src/jalview/viewmodel/seqfeatures/FeatureRendererModel.java

src/jalview/viewmodel/seqfeatures/FeatureRendererSettings.java

src/jalview/ws/jws1/SeqSearchWSThread.java

src/jalview/ws/jws2/AADisorderClient.java

test/jalview/io/FeaturesFileTest.java

test/jalview/schemes/FeatureColourTest.java

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JAL-1670 groundhog day: fix FeaturesFileTest by redacting last commit:53dd28432308dda9cc73d6887bcd43fcfe17907d

JAL-1670 repositioned feature for backwards compatibility of feature order

JAL-1670 add non-positional feature with link to demonstrate link from sequence id context menu

JAL-2079 update examples to new pfam.xfam.org domain

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JAL-2018 export graduated feature colours correctly

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JAL-2094 first pass with jalview.api.ColorI interface

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JAL-653 JAL-1968 FeaturesFile now handles Jalview or GFF2 or GFF3 (partially); feature links option removed

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JAL-1925 update source version in license

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JAL-1894 update year/version in copyright

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Merge branch 'develop' into Release_2_9_0b1_Branch JAL-1894 update release branch from develop

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JAL-1904 parse feature file colours on to alignment sequences

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JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensing glob

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JAL-1683 replace year/version strings with tokens in source

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