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JAL-3851 run the eclipse compiled jalview

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

JAL-3225 tasks to create extra desired settings for eclipse

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    ./org.eclipse.jdt.groovy.core.prefs
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    ./org.eclipse.jdt.ui.prefs
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JAL-3225 updated essential files for eclipse project if buildship fails

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    ./eclipse_startup_files.zip
JAL-3225 updated essential files for eclipse project if buildship fails

    • binary
    ./eclipse_startup_files.zip
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JAL-3225 All of .settings now gitignored. org.eclipse...prefs made by buildship or gradle eclipse. Jalview specific prefs pulled in from utils/eclipse/org.eclipse.jdt.core.jalview.prefs

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    ./org.eclipse.jdt.core.jalview.prefs
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JAL-3225 All of .settings now gitignored. org.eclipse...prefs made by buildship or gradle eclipse. Jalview specific prefs pulled in from utils/eclipse/org.eclipse.jdt.core.jalview.prefs

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    ./org.eclipse.jdt.core.jalview.prefs
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JAL-3210 Barebones gradle/buildship/eclipse. See README

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JAL-1551 reinstate formatting and save actions (with Java 1.8 additions)

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Merge branch 'Jalview-BH/JAL-3026-JAL-3063-JAXB' into trialMerge

Conflicts:

src/jalview/ext/ensembl/EnsemblRestClient.java

swingjs/timestamp

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JAL-2738 copy to spikes/mungo

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JAL-1551 updated source code formatting settings from gmungoc and README on how to compare between versions

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

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JAL-2089 patch broken merge to master for Release 2.10.0b1

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

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JAL-1645 licencing for new files in test and utils

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JAL-1551 updated to reflect changes to Eclipse preferences settings

JAL-1551 properties sorted (unchanged) for ease of comparison with org.eclipse.jdt.core.prefs

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

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JAL-1620 version bump and release notes

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JAL-1517 update copyright to version 2.8.2

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JAL-1503 update version in GPL header

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JAL-1432 updated copyright notices

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Jalview 2.8 Source Header

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update author list in license for (JAL-826)

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apply version 2.7 copyright

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updated version to 2.6.1

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Jalview 2.6 source licence

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