This is a generic set-up file for the program fmat.  This file
should include the specific scoring matricies and network weight
files and their directories necessary for this particular run.


#
CODON_TABLE		hum.cod
DONOR_MATRIX		donor_primate
ACCEPTOR_MATRIX		acceptor_primate
LENGTH_TABLE_EXON	exon_lengths
LENGTH_TABLE_INTRON	intron_lengths
ALL_EXONS		universal.tbl
KTUPLE_LENGTH		8
IFKTUPLE_TABLE          human_inframe_6tuple_freq
KTUPLE_TABLE            primate_6tuple_freq
WEIGHT_NETWORK_EXON	fmc36x_exon.wts
WEIGHT_NETWORK_INTRON	fmc36x_intron.wts
MAX_PIE_LENGTH          5000
MAX_PII_LENGTH          5000
MAX_PFE_LENGTH          5000
MAX_PLE_LENGTH          5000
ACCEPTOR_CUTOFF         0
DONOR_CUTOFF            0
PIE_DIAG_VOID		20
PII_DIAG_VOID		20

WEIGHT_MATRIX_PATH	/home/psgendb/dat/geneparser/tables/
WEIGHT_NETWORK_PATH     /home/psgendb/dat/geneparser/tables/	
GENBANK_PATH		not_currently_supported
CLASS_TABLES_PATH	/home/psgendb/dat/geneparser/tables/
CODON_TABLE_PATH	/home/psgendb/dat/geneparser/tables/
SEQ_PATH		/home/psgendb/dat/geneparser/tables/
AUTOCOR_MATRIX_PATH	/home/psgendb/dat/geneparser/tables/
COLOR_MAP_PATH	        /home/psgendb/dat/geneparser/tables/	
QUICKPROP_PATH		/home/psgendb/dat/geneparser/tables/
KTUPLE_PATH             /home/psgendb/dat/geneparser/tables/