//  run from pce/casp5/t0152

SetSeed

InfilePrefix 
Include define-score.script

Time

MakeGenericFragmentLibrary
Time


// The following alignments are believed to be good:
InFilePrefix 
ReadFragmentAlignment T0152-1bo4A.vast.fasta
ReadFragmentAlignment T0152-1qsmD.vast.fasta

ReadFragmentAlignment T0152.t2k-2track-undertaker.a2m

InFilePrefix 
Include T0152.t2k.undertaker-align.script 

PrintAlignmentsPDB T0152.t2k.undertaker-align.pdb superpose

quit