problem about stampy

[komais]

After i run command like this:
python stampy.py -g hg19 -h hg19 --solexa --bwaoptions="-q10 hg19.fa " -o quick.sam --bwatmpdir=./tmp -M fq_1.gz fq_2.gz

I got the error message:

stampy: Error: Executing 'bwa aln -q10 hg19.fa ./tmp/tmpbwacxNokd.fq' exits with returncode -6

Could anybody tell me where the problem is ? and how to solve it?

Thank you very much

[komais]

Oh, found the problem finally.
The error is in --bwaoptions="-q10 hg19.fa "
It should not contain a blank between hg19.fa and " symbol

[peas1127]

does anyone know the exact commands to simulate reads in stampy??

m doing
-S <filename>.fastQ -g hg -h hg

please tell me if thats correct??