To get here in Finder right click on the Jalview icon in Applications and select "Show Package Contents".
#USING INSTALL4J WINDOWS#
On Windows the Jalview installation directory defaults to %APPDATA%\Local\Jalview,.
You can do this with sudo sed -i -E 's/^(assistive_technologies=org\.GNOME\.Accessibility\.AtkWrapper)/#\1/' /etc/java-8-openjdk/accessibility.propertiesĭepending on your platform you will need to take a look at the launcher.log file within the Jalview installation directory: Or comment out the following line "assistive_technologies=" in the file /etc/java-8-openjdk/accessibility.properties.
#USING INSTALL4J INSTALL#
To fix this you can either install openjdk-8-java with sudo apt install openjdk-8-java If you have the openjdk-8-jre-headless package installed but NOT the openjdk-8-jre package (for example this might be default on an Ubuntu Server distribution) then you might find Jalview silently fails to launch and the ~/opt/Jalview/launcher.log file contains: Exception in thread "Getdown" : Assistive Technology not found: Jalview will use a Java 11 runtime environment in version 2.12.Ģ.
On CentOS 8 or Fedora 31 INSTALL4J_JAVA_HOME_OVERRIDE=/usr/lib/jvm/jre-1.8.0 ~/opt/Jalview/JalviewĪlternatively you could add an "export INSTALL4J_JAVA_HOME_OVERRIDE=." in your ~/.bashrc file but this could affect other applications installed using install4j. On Ubuntu 18.04, INSTALL4J_JAVA_HOME_OVERRIDE=/usr/lib/jvm/java-8-openjdk-amd64 ~/opt/Jalview/Jalview (assuming you installed Jalview in the default location ~/opt/Jalview) You can achieve this on the command line with, e.g. If after installing a Java 1.8 runtime environment you are experiencing the same problem, you may need to tell the Jalview launcher where to find the JRE 1.8 with the environment variable INSTALL4J_JAVA_HOME_OVERRIDE. Or you can install a local version of the Java runtime environment - we recommend the installers from AdoptOpenJDK. On CentOS 8 or Fedora 31 sudo yum install java-1.8.0-openjdk On Ubuntu 18.04, sudo apt install openjdk-8-jre You can fix this by installing the right version of Java either with your distribution's package manager. In the case of Jalview 2.11.0 this should be Java 1.8. For other linux platforms please read below. This (slightly misleading) error message is caused by the launcher not being able to find the right version of the Java runtime environment (JRE).įor Jalview 2.11.1.0 or later we distribute an installer for linux with 64bit intel processors that bundles a JRE, we recommend using this installer to upgrade. If you have used the Jalview-X_unix_installer_x_x_x-j8.sh installer, or the similar * distribution, in some cicumstances you might get an error when launching Jalview that includes the message "Failed to rename. Install Jalview again using the same installer as before, but this time on the second screen ( Select Destination Directory) ensure the path has no spaces (e.g.This should launch Jalview's uninstall wizard, follow the instructions. Open a File Explorer and go to location %APPDATA%\Local\Jalview\uninstall.exe or %LOCALAPPDATA%\Local\Jalview\uninstall.exe if the first one isn't found.This will launch Jalview's uninstall wizard, follow the instructions. Select Jalview 2.11.1.0 from the program list and then click on the Uninstall/Change button above the list. Open the Control Panel and go to Programs→Programs and Features→Uninstall a program.Uninstall the non-working Jalview by either:.If your installation of Jalview goes fine, but double clicking on the Jalview icon does not produce any error message, window or any other activity (other than the spinning blue circle) this might be caused by a space character in Jalview's installation folder. Here are some tips for various problems: Problems on Windows: If you've been redirected to this FAQ then it probably means that the Jalview Native application has encountered an error whilst trying to start.
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