Hello!
I'm trying to create a perl pipeline to GCG, but when I type:
system("pileup \"@\"test.list -GAP=8 -LENgth=2 -DENsity=20.0
-OUTfile=test.msf")
I still get prompted for all these parameters and although the default .msf
file gets created, I get a message at the end saying:
sh[2]: -GAP=8: not found
Can anyone help?
Many thanks!
Mary Logue,
Bioinformatics program,
University of Ulster, Coleraine, Northern Ireland
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