Increase heap size IGV 2.19.7 on MacOS

[Sheina Sim]

Hello!

I am trying to load some large .bed files and I would like to increase the heap size.

I located the igv.jar file and ran:

java -jar -Xms2g -Xmx8g Contents/Java/lib/igv.jar

And I got this error:

Error: Unable to initialize main class org.broad.igv.ui.Main

Caused by: java.lang.NoClassDefFoundError: htsjdk/tribble/util/URLHelperFactory

I tried the browser, and ran into the same memory issue.

I also tried igv.js in a jypter instance but could not load a custom fasta. Is it possible to load a custom reference that is stored locally on igv.js?

Any advice on increasing heap size on my local machine?

Thanks!

[igv-help]

See https://github.com/igvteam/igv/blob/main/scripts/igv.sh,  or https://github.com/igvteam/igv/blob/main/scripts/igv.bat if on windows, and modify accordingly.   If you need more than 8 GB to load a file perhaps an indexed or bigbed format would work better.