jalview

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JAL-4059 update Jmol and JSmol to 15.2.69 - revised Jalview classes interating with Jmol API to handle double precision structure data

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    /j11lib/Jmol-15.2.69-NOLOG4J.jar
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    /j8lib/Jmol-15.2.69-NOLOG4J.jar
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    /src/jalview/ext/jmol/JalviewJmolBinding.java
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    /src/jalview/ext/jmol/JmolParser.java
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    /src/mc_view/AppletPDBCanvas.java
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    /utils/jalviewjs/libjs/jmol-app.zip
JAL-3059 upgrade Jmol from 14.31.53 to 15.2.69 (double precision) - required patches to structure data related classes and Jmol API implementors for float->double

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    /j11lib/Jmol-15.2.69-NOLOG4J.jar
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    /j8lib/Jmol-15.2.69-NOLOG4J.jar
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    /src/jalview/ext/jmol/JalviewJmolBinding.java
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    /src/jalview/ext/jmol/JmolParser.java
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    /src/mc_view/AppletPDBCanvas.java
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    /test/jalview/ext/jmol/JmolViewerTest.java
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    /utils/jalviewjs/libjs/jmol-app.zip
JAL-3059 bump version and Upgrade swingjs to 3.3.1

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    /swingjs/ver/3.2.10-j11/_j2sclasslist.txt~merged
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    /swingjs/ver/3.2.10-j11/_j2sclasslist.txt~merged_0
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    /swingjs/ver/3.3.1-j11/SwingJS-site.zip
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    /swingjs/ver/3.3.1/SwingJS-site.zip
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    /swingjs/ver/3.3.1/net.sf.j2s.core.jar
JAL-4059 bump version and Upgrade swingjs to 3.3.1

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    /swingjs/ver/3.2.10-j11/_j2sclasslist.txt~merged
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    /swingjs/ver/3.2.10-j11/_j2sclasslist.txt~merged_0
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    /swingjs/ver/3.3.1-j11/SwingJS-site.zip
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    /swingjs/ver/3.3.1/SwingJS-site.zip
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    /swingjs/ver/3.3.1/net.sf.j2s.core.jar
Merge branch 'develop' into releases/Release_2_11_2_Branch

JAL-4046 release on 9th August 2022

Merge branch 'develop' into releases/Release_2_11_2_Branch

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
Merge branch 'develop' into releases/Release_2_11_2_Branch

JAL-4046 release notes for JAL-4014 - gecos colourschemes

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

Merge branch 'develop' into releases/Release_2_11_2_Branch

JAL-4056 documented in release notes for JAL-4043

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

Merge branch 'develop' into releases/Release_2_11_2_Branch

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-4055 quick patch to see how Jalview looks as a free-floating multiwindowed app rather than a Desktop contained app

JAL-4048 feature group filter

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

JAL-4036 updated help about new UniProt API

JAL-4036 moved a comment block

JAL-4034 button looks better also on other OSes with the 0 vertical insets

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    /src/jalview/jbgui/GStructureChooser.java