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AMBER Archive (2009)Subject: [AMBER] glycam and solvateoct command
From: Heath Watts (hwatts_at_geosc.psu.edu)
Hi,
$AMBERHOME/exe/antechamber -i sustiva.pdb -fi pdb -o sustiva.prepin -fo
$AMBERHOME/exe/parmchk -i sustiva.prepin -f prepi -o sustiva.frcmod
$AMBERHOME/exe/xleap -s -f $AMBERHOME/dat/leap/cmd/leaprc.ff99
source leaprc.gaff
loadamberprep sustiva.prepin
loadamberparams sustiva.frcmod
solvateoct SUS TIP3PBOX 8.0
This generated the 8.0 A octahedral volume of H2O around my model, as I
However, if I use (everything else is the same):
$AMBERHOME/exe/xleap -s -f $AMBERHOME/dat/leap/cmd/leaprc.glycam04
instead of:
$AMBERHOME/exe/xleap -s -f $AMBERHOME/dat/leap/cmd/leaprc.ff99
I get the following message when I run the solvateoct command:
solvateOct: Argument #2 is type String must be of type: [unit]
usage: solvateOct <solute> <solvent> <buffer> [ansio] [closeness]
What could be causing this error that prevents me from solvating my model?
Thanks,
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