Linux 2.19.5 with Java fails to properly load bundled Java

I recently downloaded IGV_Linux_2.19.5_WithJava and ran it on my machine. Executing the igv.sh command yielded the following error:

echo Using bundled JDK.
openjdk version "17.0.15" 2025-04-15
OpenJDK Runtime Environment (build 17.0.15+6-Ubuntu-0ubuntu122.04)
OpenJDK 64-Bit Server VM (build 17.0.15+6-Ubuntu-0ubuntu122.04, mixed mode, sharing)
Error occurred during initialization of boot layer
java.lang.module.FindException: Error reading module: /mnt/barry/projects/gene_software/IGV/IGV_Linux_2.19.5/lib/igv.jar
Caused by: java.lang.module.InvalidModuleDescriptorException: Unsupported major.minor version 65.0

After inspecting the Bash script I noticed it does not actually export the PATH variable prepending the Java path:

if [ -d "${prefix}/jdk-21" ]; then
    echo echo "Using bundled JDK."
    JAVA_HOME="${prefix}/jdk-21"
    PATH=$JAVA_HOME/bin:$PATH
else
    echo "Using system JDK. IGV requires Java 21."
fi

After adding export before PATH=$JAVA_HOME/bin:$PATH, the problem was fixed and I was able to boot up IGV as normal.

[jrobinso]

Thanks for the report! Let's keep it open in case others have this problem and find this issue. I'll fix it for the next release.

[jrobinso]

I am a bit confused as to why you need to export PATH, the variable is not used by another shell. Are you starting iv.sh from the command line or some other way? Also, what Linux are you running, and is this run in a bash shell?

After a bit more testing I discovered it wasn't because of the "export" statement. I also had to make the java binary executable in jdk-21/bin ; this seems to be the fix (not sure if that can or should be enforced somehow in the Bash script)

[jrobinso]

That shouldn't be necessary either, its already executable. Here's what I see after installation. Its a bit of a mystery here but glad you got it working.

[NicoleBarw]

I installed igv via conda and get exactly the same error.

[jrobinso]

I've your having trouble with Linux please read the note on the Downloads page and follow the instructions to use the "Command Line version for all platforms".

https://igv.org/doc/desktop/#DownloadPage/