jalview

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JAL-3633 new getdown jars

    • binary
    /getdown/lib/getdown-launcher-local.jar
JAL-3633 refactored/simplified LaunchUtils code

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    /src/jalview/util/ChannelProperties.java
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    /src/jalview/util/LaunchUtils.java
TDB.executeRequest fix & test passed

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    /src/jalview/fts/core/FTSRestResponse.java
Added (and passed !)all the FTS tests from test.fts.core

Created 3Dbeacons data_columns.txt Test passed for data columns

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    /resources/fts/tdbeacons_data_columns.txt
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    /src/jalview/fts/core/FTSRestResponse.java
JAL-3633 new getdown jars

    • binary
    /getdown/lib/getdown-launcher-local.jar
JAL-3633 getdown reads jalview_properties for proxy settings

JAL-3830 Moved wrappers to bin/jalview.* and make a symlink bin/jalview. Install4j script now jalviewg

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    /utils/getdown/bin/jalview.ps1
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    /utils/getdown/bin/jalview.sh
JAL-3503 Changed decimal display of memory in Prefences

JAL-3594 Making default .jalview_properties file separate. Now .jalview_nonrelease_properties

JAL-3503 missed a widget being disabled

JAL-3503 New getdown version and jar files

    • binary
    /getdown/lib/getdown-launcher-local.jar
JAL-3503 Added a Startup tab in Preferences, with gui for JVMMEMMAX and JVMMEMPC settings. Allowed jalview.bin.Launcher and getdown to read/use these memory settings at launch. Added channel.props to getdown appdir, used to determing correct .jalview_properties file. Refactored MemorySetting a bit, with more helper methods for the Preferences tab.

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    /resources/lang/Messages.properties
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    /resources/lang/Messages_es.properties
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    /src/jalview/bin/LaunchUtils.java
  1. … 6 more files in changeset.
JAL-3830 Allow paths to start with '~'. Make path check more succinct.

JAL-3830 Now using a single universal bash script (jalviewc) for bash in linux, macos, cygwin and WSL. It keeps things together.

JAL-3830 add the windows bash script to getdown files and install4j installers

JAL-3830 bash script that works in both cygwin and WSL (Windows Subsystem for Linux)

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    /utils/getdown/jalviewc-windows
JAL-3830 Delete wrapper scripts and getdown *v files when uninstalling

JAL-3830 powershell wrapper tested on linux, macos and windows including spaces in paths. This is the way.

added untracked parsing attempts files

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    /src/jalview/fts/service/threedbeacons/.gitignore
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    /test/jalview/fts/threedbeacons/.gitignore
Adding tests for 3DB, currently 2/4 corrects on PanelTest

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    /test/jalview/fts/threedbeacons/TDBeaconsFTSRestClientTest.java
Merge branch 'releases/Release_2_11_1_Branch'

JAL-3830 minor fix in powershell wrapper

JAL-3830 powershell follows symlinks as they do exist in NTFS, and of course in linux

JAL-3830 Powershell wrapper now works cross-platform. Who needs bash?!

JAL-3830 Make wrapper scripts executable

JAL-3830 powershell wrapper tested and fixed

JAL-3830 improved bash scripts. Added powershell script. Needs testing

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    /utils/getdown/jalviewc.ps1
JAL-3830 unix and macos wrappers. Symbolic link to jalviewc-macos in Contents/MacOS/jalviewc.

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    /utils/getdown/jalviewc
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    /utils/getdown/jalviewc-macos
JAL-3523 Advanced the getdown version number

    • binary
    /getdown/lib/getdown-launcher-local.jar