[Bioperl-l] remoteblast doesn't save the Output File
torsten.seemann at infotech.monash.edu.au
Tue Dec 6 17:45:53 EST 2005
(Hubert - please send your emails to bioperl-l at bioperl.org so others
can help too)
> Sorry for the Misunderstanding, it was my fault. I have already read the
> Module, and the Matrix is working well. But if I want to change the
> Gapcost Parameter, I don't know
> how to format, because if I do it like that 'GAPCOSTS' = '9 1'; I will
> get the following Message:
> MSG: Value 9 1 for PUT parameter GAPCOSTS does not match expression
> -?\d+(\.\d+)\s+i-?\d+(\.\d+). Rejecting.
> if I do it like 'GAPCOSTS' = '9'; I will get the same Message like above.
> I have tried it with "" too, but there was no Impact on it, i got the
> same Message:
The error is clear:
'9 1' fails because it does not match the regular expression
The $NUM='-?\d+(\.\d+)' parts are trying to match a floating point
number or integer, eg. "3.41" or "6" or "-78.1", which simplifies to
/$NUM\s+i$NUM/x which suggests it wants it in the form:
'GAPCOSTS' = '9 i1'
which looks unusual but would match the pattern?
The documentation says '9 1' should work?
Perhaps a bug in NCBI's code, the 'i' might be a typo?
Torsten Seemann <torsten.seemann at infotech.monash.edu.au>
Victorian Bioinformatics Consortium
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