jalview

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JAL-3227 helper shell scripts for setting up a build environment

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    /utils/download_jdks.sh
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    /utils/download_jres.sh
JAL-3449 fix a getdownAppDir error introduced in previous commit 55f545014

JAL-3449 More tidying of build.gradle for CHANNEL selection

JAL-3187 applet alignFrame needs new api method

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    /src/jalview/appletgui/AlignFrame.java
JAL-3187 first stab at ‘show CDS/Protein Settings’ for convenient switching between complementary feature settings

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    /src/jalview/gui/FeatureSettings.java
JAL-3187 view controller UI api method to show feature settings UI

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    /src/jalview/api/AlignViewControllerGuiI.java
JAL-3187 convenience method on SplitContainerI to retrieve a complement’s alignFrame

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    /src/jalview/api/SplitContainerI.java
JAL-1354 JAL-3528 report missing keys for MessageManager.format calls

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    /src/jalview/util/MessageManager.java
JAL-3407 release notes for JAL-3121

JAL-3289 Updated doc/building.md to explain possible values of the CHANNEL property during building

JAL-3289 Updated doc/building.md to explain possible values of the CHANNEL property during building

JAL-3523 No longer change CWD of getdown when invoked by install4j launcher

JAL-3407 release notes for JAL-3375

JAL-3376 highlighted in what’s new

JAL-3407 - JAL-3376 JAL-3377 release notes

JAL-3407 start of whats new for 2.11.1.0

JAL-3376 documentation for standard attributes for variants from VCF

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    /help/help/html/features/importvcf.html
JAL-3407 release notes (JAL-3386 signoff, new-knowns JAL-3523 JAL-3525)

JAL-3407 JAL-3508 move to 2.11.1.0 point release versioning and signed off JAL-3510 JAL-3513 JAL-3388 JAL-3389 JAL-3441 JAL-3473 JAL-3406

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    /help/help/html/releases.html
JAL-3521 Ignore quilt dir /.pc

JAL-3179 Version fix for taskTree gradle task in gradle 6

Implement simple media type recognition.

JAL-1842 unit test updated for EnsemblGene feature settings changes

JAL-1842 unit test updated for EnsemblGene feature settings changes

JAL-1842 adjust code to match changed semantics of FeatureSettingsModelI

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    /src/jalview/ext/ensembl/EnsemblGene.java
JAL-1842 adjust code to match changed semantics of FeatureSettingsModelI

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    /src/jalview/ext/ensembl/EnsemblGene.java
JAL-3509 JAL-1842 minor tidying of code

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    /src/jalview/gui/CutAndPasteTransfer.java
JAL-3509 JAL-1842 minor tidying of code

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    /src/jalview/gui/CutAndPasteTransfer.java
JAL-1842 remove redundant call to FeatureRenderer.featuresAdded()

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    /src/jalview/ext/jmol/JalviewJmolBinding.java
JAL-1842 remove redundant call to FeatureRenderer.featuresAdded()

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    /src/jalview/ext/jmol/JalviewJmolBinding.java