[Bioperl-l] StandAloneBlast and tempfiles

[Peter Kos, PhD]

Hi,

the StandAloneBlast swiftly and smoothly filled the file system of 
/tmp/
at the first overnight run. I've already figured out how it happened, 
so I
inserted a small code at the end of each cycle (of many local Blasts) 
which now deletes the temporary files, which in fact were not really 
temporary.
Now I am happy to see that it is going to be fixed within the module, 
so others
will not have this problem.
I have some questions, however.
1.,
I could not figure out how to SET the $TEMPDIR. It would be nice to 
try
whether the program speeds up a bit if I place the $TEMPDIR in 
another physical
volume, not messing with the op.system. Furthermore, this way I could 
run
more than one instances of this script without limitations.
2.,
=offtopic
Could someone help me out, how to set the buffer of the command line 
in tcsh/Solaris?
(Or how else to circumvent this:) (Or whom to ask)
I am really sick of these error messages like:
"/bin/ls: Arg list too long"
after
>ls -1 *.scf > fofn
or simply
>rm /tmp/*
It was really fun writing the first couple of perl script aliases for 
built-in UNIX commands,
but now it is enough.
I admit that I have more than many files, but that's why I do not use 
a Commodore64.
=cut

Your help would really be highly appreciated

Peter