#	cobbler config file for PSI-BLAST checkpoint file output
#		Make a PSSM for each block (BL, FR, QM)
#		Select consensus residue based on highest PSSM value
#			(TY 4)
#		Embed the PSSM in the closest sequence from test.blks,
#			which is assumed to be in test.pros with the
#			same name and position (DB test.pros)
#		Trim the embbed PSSM to within 10 aas before the first
#			block and after the last block (TR 10)
#		Print a profile using the PSSM inside the blocks and 
#			and single55.psi outside them (MA, PF)
#	MA line triggers profile output, PF line specifies profile format
#	psi-blast.pro contains the embedded sequence (OU)
#	psi-blast.pro.prf contains the embedded pssm (OU)
#
#	Execute psi-blast:   
#	 blastpgp -i psi-blast.pro -R psi-blast.pro.prf -j <iter> -d <database>
#
TY	4
BL	test.blks
FR	default.amino.frq
QM	blosum55.qij
TR	10
DB	test.pros
MA	single55.psi
PF	PSI
OU	psi-blast.cob
