jalview

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JAL-4065 release notes for JAL-4061 JAL-4062

JAL-4062 copy highlighted region docs, new Alignment window Edit menu option and Shift+Ctrl/CMD-C keystroke

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    /help/help/html/menus/alignmentMenu.html
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    /src/jalview/jbgui/GAlignFrame.java
JAL-4061 JAL-4062 documentation and button labels.. will need revising !

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    /help/help/html/features/search.html
JAL-4061 use alignment panel’s feature renderer to limit search to just the visible features

JAL-4061 support incremental search of features

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    /test/jalview/analysis/FinderTest.java
JAL-4061 tests, bugfixes and TODOs for matching feature(s) and descriptions incrementally

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    /test/jalview/analysis/FinderTest.java
JAL-4062 avc operation and model method for copying SearchResultsI.getMatchingSubSequences() to clipboard

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    /src/jalview/api/AlignViewControllerI.java
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    /src/jalview/datamodel/SearchResults.java
Merge branch 'develop' into features/JAL-4061_and_JAL-4062_findselectfeatures

JAL-4065 release notes for JAL-4014 and JAL-4063 in 2.11.2.5

JAL-4065 - new release notes featuring JAL-3612 fix

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    /help/markdown/releases/release-2_11_2_5.md
Merge branch 'bug/JAL-3612_overviewFeatureOrdering' into develop

JAL-4061 JAL-4062 button in Find dialog to copy highlighted regions to clipboard

JAL-4061 JAL-4062 Find can now search features

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    /src/jalview/analysis/Finder.java
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    /test/jalview/analysis/FinderTest.java
JAL-4014 JAL-4063 Added gecos colourScheme names (INFO message) and fixed Clustal colourScheme name

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    /resources/lang/Messages_es.properties
JAL-4046 release on 9th August 2022

JAL-4046 JAL-3993 imports reformatting

JAL-4046 JAL-3993 patch for 2.11.2.4 release

JAL-4046 release notes for JAL-3991

Merge branch 'task/JAL-3991_check_actual_JAVA_VERSION_against_build_properties_in_application_startup' into develop

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    /resources/lang/Messages_es.properties
JAL-4046 release notes for JAL-4014 - gecos colourschemes

Merge branch 'improvement/JAL-4014_gecos_colour_schemes' into develop

JAL-4056 documented in release notes for JAL-4043

Merge branch 'patch/JAL-4036_uniprot_fts_legacy_endpoint' into develop

JAL-4043 what’s new, updated help images and release notes for JAL-4034 (3d beacons button)

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    /help/help/html/features/3dbeacons_button.png
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    /help/help/html/features/schooser_main.png
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    /help/markdown/whatsnew/whatsnew-2_11_2_4.md
JAL-4034 show the loading spinner when switching between tabs

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    /src/jalview/gui/StructureChooser.java
Merge branch 'features/JAL-4034_improve_3dbeacons_button_and_ux' into develop

JAL-4056 fixed tl;dr section of doc/building.md

JAL-4036 Fixed the virus_host_id query field

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    /resources/fts/uniprot_data_columns-2022.txt
JAL-4036 Added text to help about different number and date range acceptable formats