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JAL-3594 Different icon/getdown styling when launching jalview built with -PCHANNEL=DEVELOP

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    ./channels/develop_properties
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    ./channels/release_properties
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    ./getdown/Jalview-Logo.png
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    ./getdown/develop/Jalview-Logo.png
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    ./getdown/develop/jalview_logo_background_blur-640x480.xcf
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    ./getdown/develop/jalview_logo_background_getdown-640x480.png
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    ./getdown/develop/jalview_logo_background_getdown-progress.png
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    ./getdown/develop/jalview_logo_background_getdown-progress3.xcf
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    ./getdown/develop/jalview_logo_background_getdown_error-640x480.png
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    ./getdown/develop/jalview_logo_background_getdown_instant-640x480.png
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    ./getdown/develop/jalview_logos.icns
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    ./getdown/jalview_logos.icns
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    ./install4j/Jalview-Logo.png
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    ./install4j/develop/Jalview-Logo.png
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    ./install4j/develop/cmds
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JAL-3594 Different icon/getdown styling when launching jalview built with -PCHANNEL=DEVELOP

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    ./channels/develop_properties
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    ./channels/release_properties
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    ./getdown/Jalview-Logo.png
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    ./getdown/develop/Jalview-Logo.png
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    ./getdown/develop/jalview_logo_background_blur-640x480.xcf
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    ./getdown/develop/jalview_logo_background_getdown-640x480.png
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    ./getdown/develop/jalview_logo_background_getdown-progress.png
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    ./getdown/develop/jalview_logo_background_getdown-progress3.xcf
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    ./getdown/develop/jalview_logo_background_getdown_error-640x480.png
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    ./getdown/develop/jalview_logo_background_getdown_instant-640x480.png
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    ./getdown/develop/jalview_logos.icns
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    ./getdown/jalview_logos.icns
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    ./install4j/Jalview-Logo.png
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    ./install4j/develop/Jalview-Logo.png
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    ./install4j/develop/cmds
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JAL-3728 Icon and setting icon for Java Console

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    ./images/JalviewConsole_Huge.xcf
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JAL-1424 streamlined message checker, corrected applet lookup keys

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JAL-1424 slight tidying of reporting

JAL-3658 Now only making cores from utils/jalviewjs/classlists/*.txt

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    ./jalviewjs/classlists/_jvjmol.txt
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    ./jalviewjs/classlists/jalview.txt
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    ./jalviewjs/classlists/jvexamplefile.txt
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    ./jalviewjs/classlists/jvjmol.txt
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    ./jalviewjs/classlists/stevesoft.txt
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JAL-3446 rearranged parameters for JalviewJS API methods

JAL-3446 reorganized JalviewJSApp (accidentally put that in jalview/api) and fixes for 2-applet example

- API.md

- follows commit 01717e2 (missing JAL-3446 tag)

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reorganized JalviewJSApp (accidentally put that in jalview/api) and fixes for 2-applet example

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    ./jalviewjs/site-resources/_jalview_bin_JalviewJS_core.html
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    ./jalviewjs/site-resources/_jalview_embedded_example1.html
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    ./jalviewjs/site-resources/_jalview_embedded_example2.html
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JAL-3446 adds Jmol viewer embedding.

JAL-3446 embedded file for proper name matching

web app name "Jalview"

div id="Jalview-desktop-div"

So whatever name you give the applet must match the div tags.

Previously, the div name was associated with a different name,

Info.j2sAppID, or something like that. This is much more sensible.

Just don't name it "jalview", because that is a package name!

JAL-3225 Removed dependency on command line pandoc to convert .md files to .html. Now all files in doc/*.md will get converted to doc/*.html using flexmark within gradle process.

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JAL-3225 Removed dependency on command line pandoc to convert .md files to .html. Now all files in doc/*.md will get converted to doc/*.html using flexmark within gradle process.

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adds link for __j2sflags.htm to template.html

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    ./jalviewjs/site-resources/___j2sflags.htm
_jvjmol.txt

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    ./jalviewjs/classlists/_jvjmol.txt
JAL-3664 support for user.home, user.dir, user

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    ./jalviewjs/classlists/_j2sclasslist_jmol.txt
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JAL-3446 latest jmol zip from JAL-3253-applet (commit c28e0a1)

JAL-3541 Helpers for running tests, and other commands headlessly

JAL-3541 Helpers for running tests, and other commands headlessly

JAL-3541 JavaExec tasks for cloverInstr and cloverReport. Rationalised compileClasspaths for main, clover and test.

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    ./clover/lib/clover-ant-4.4.1.jar
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JAL-3541 JavaExec tasks for cloverInstr and cloverReport. Rationalised compileClasspaths for main, clover and test.

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    ./clover/lib/clover-ant-4.4.1.jar
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JAL-3609 Fixed typo

JAL-3609 Tested as POSIX compliant

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    ./install4j/set_hidpi_in_linux_test.sh
JAL-3609 Add to the unix/linux launch script to detect HiDPI and set GDK_SCALE

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    ./install4j/install4j8_template.install4j
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    ./install4j/set_hidpi_in_linux.sh
JAL-3611 added quotation marks for appdir argument install4j uses to invoke getdown-launcher.jar

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    ./install4j/install4j8_template.install4j
JAL-3611 added quotation marks for appdir argument install4j uses to invoke getdown-launcher.jar

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    ./install4j/install4j8_template.install4j
JAL-3225 save auto formatting settings in org.eclipse.jdt.ui.prefs. Not yet put into place, but these settings should be used

JAL-3577 Added newer install dirs to the deletion list in the uninstaller and tidied the list

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    ./install4j/install4j8_template.install4j
JAL-3289 New getdown splashscreens to be used with different getdown channels

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    ./getdown/jalview_logo_background_fade-640x480.xcf
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    ./getdown/jalview_logo_background_getdown-ARCHIVE-640x480.png
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    ./getdown/jalview_logo_background_getdown-BUILD-640x480.png
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    ./getdown/jalview_logo_background_getdown-DEVELOP-640x480.png
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    ./getdown/jalview_logo_background_getdown-LOCAL-640x480.png
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    ./getdown/jalview_logo_background_getdown-NON-RELEASE-640x480.png

changeset discussion

  1. Jim Procter: Hi Ben Soares - maybe nicer to have these generated by the getdown launcher in the future ? Worth an issue perhaps ?
  2. Ben Soares: Would be nicer. Currently the getdown-launcher is agnostic of which CHANNEL the Jalview version it's in was created w...
JAL-3588 Auto insert of Examples folder into DMG and an attempt to style both the Volume icon and the Examples folder icon (icons not working)

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    ./install4j/DMG.VolumeIcon.icns
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    ./install4j/examples_folder.png
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    ./install4j/install4j8_template.install4j
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    ./install4j/jalview_macos_examples_folder_icon
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