allow more RAM for java

[gaworj]

Hi,

Thank you very much for such great tool!

Is it possible to set more RAM for java to allow tinycov to operate on larger bam files?

I have encountered such error in case of larger bam files:

line 44: 8684 Segmentation fault (core dumped) tinycov covplot -r 1000 -s 500 -n $prefix $wdir/$out -o $wdir/$prefix"_coverage_plot"
Command line run, unsetting DISPLAY variable...
Display:
Java memory size is set to 1200M
Launching application...

Bests,
Jan

[cmdoret]

Hi @gaworj,

Thanks for your feedback! :)
Tinycov does not use or rely on Java as far as I know. Is it possible that you are running the command inside some kind of virtual machine that is written in java (like Virtualbox). If so, the message you see indicates that the RAM used by tinycov exceeds the RAM allocated to the VM.

I am currently working on a partial rewrite of tinycov that works in streams and does not require much RAM, but I don't know how much time it'll take.