I am trying to use bbmap (
pileup.sh in= my.fa out=new.txt) to check the sequencing depth of assembly scaffolds derived from illumina reads.
Using Linux, I installed java jdk as you see:
$ java -version java version "1.8.0_121" Java(TM) SE Runtime Environment (build 1.8.0_121-b13) Java HotSpot(TM) 64-Bit Server VM (build 25.121-b13, mixed mode)
Also, I installed bbmap module.
When I tried to run the pipeline :
pileup.sh in= my.fa out=new.txt, I got this error :
Error occurred during initialization of VM Unable to allocate 207104KB bitmaps for parallel garbage collection for the requested 6627328KB heap. Error: Could not create the Java Virtual Machine. Error: A fatal exception has occurred. Program will exit.
How can I fix this error?