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MiGLayout and VARNA site zips for SwingJS 3.2.9

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returning src2 -> srcjar

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    ./fr/orsay/lri/varna/README_SWINGJS.txt
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    ./fr/orsay/lri/varna/VARNAPanel.java
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    ./fr/orsay/lri/varna/applications/AlignmentDemo.java
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    ./fr/orsay/lri/varna/applications/BasicINI.java
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    ./fr/orsay/lri/varna/applications/NussinovDemo.java
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    ./fr/orsay/lri/varna/applications/VARNAEditor.java
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    ./fr/orsay/lri/varna/applications/VARNAGUI.java
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Java 11 integration;

-- compiler complaining about javax.xml module

Failed to resolve resource /.build_properties:

@swingjs/j2s/jalview/bin/Cache.js:164:24

transpiler was 3.2.9-v1 now 3.2.4.07 for net.miginfocom.swing.MigLayout

TypeError: C$.UNIT_MAP.put$TK$TV is not a function

-- some runtime errors involving resources

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    ./fr/README_SWINGJS.txt
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    ./fr/orsay/lri/varna/VARNA.java
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    ./fr/orsay/lri/varna/VARNAPanel.java
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    ./fr/orsay/lri/varna/applications/AlignmentDemo.java
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    ./fr/orsay/lri/varna/applications/BasicINI.java
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    ./fr/orsay/lri/varna/applications/NussinovDemo.java
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    ./fr/orsay/lri/varna/applications/NussinovDesignDemo.java
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    ./fr/orsay/lri/varna/applications/SecStrConsensus.java
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    ./fr/orsay/lri/varna/applications/SuperpositionDemo.java
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    ./fr/orsay/lri/varna/applications/VARNAConsoleDemo.java
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    ./fr/orsay/lri/varna/applications/VARNAOnlineDemo.java
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JAL-3210 Barebones gradle/buildship/eclipse. See README

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removes org.json from srcjar

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JAL-3032 upgrade to Jmol 14.29.17; clearing of src2 directory

probably should put .gitignore on src2. Sorry about that.

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    ./fr/orsay/lri/varna/README_SWINGJS.txt
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    ./fr/orsay/lri/varna/VARNAPanel.java
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    ./fr/orsay/lri/varna/applications/AlignmentDemo.java
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    ./fr/orsay/lri/varna/applications/BasicINI.java
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    ./fr/orsay/lri/varna/applications/NussinovDemo.java
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    ./fr/orsay/lri/varna/applications/VARNAEditor.java
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    ./fr/orsay/lri/varna/applications/VARNAGUI.java
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JAL-3032 adds Java 8 functionality (2/2)

the "::" operator

lambda expressions

java.util.function.*

java.util.stream.*

default methods in interfaces

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    ./fr/orsay/lri/varna/README_SWINGJS.txt
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    ./fr/orsay/lri/varna/VARNA.java
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    ./fr/orsay/lri/varna/VARNAPanel.java
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    ./fr/orsay/lri/varna/applications/AlignmentDemo.java
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    ./fr/orsay/lri/varna/applications/BasicINI.java
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    ./fr/orsay/lri/varna/applications/NussinovDemo.java
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    ./fr/orsay/lri/varna/applications/NussinovDesignDemo.java
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    ./fr/orsay/lri/varna/applications/SecStrConsensus.java
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    ./fr/orsay/lri/varna/applications/SuperpositionDemo.java
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    ./fr/orsay/lri/varna/applications/VARNAConsoleDemo.java
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    ./fr/orsay/lri/varna/applications/VARNAEditor.java
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    ./fr/orsay/lri/varna/applications/VARNAGUI.java
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    ./fr/orsay/lri/varna/applications/VARNAOnlineDemo.java
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src2 directory added to class path, zipping/unzipping of JAR file source

JAR file source Java is in srcjar/

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    ./README_SWINGJS.txt
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