hmmscore T0113.t2k-2track \
	-trackmod T0113.t2k-w0.5.mod,T0113.t2k-2d.mod \
	-db /projects/compbio/experiments/models.97/indexes/t99.seqs,/projects/compbio/experiments/models.97/indexes/t99.2ds \
	-alphabet protein,EHL2 \
	-trackcoeff 0.5,0.5 \
	-sw 2 -dpstyle 0 \
	-fim_method_score 5 -inset_method_score 5 \
	-select_score 4 -Emax 40.
Command line option(14):  Could not understand inset_method_score 5
SAM: hmmscore v3.2 (July 31, 2000) compiled 08/04/00_11:31:33
T0113.t2k-w0.5.mod(21):  Reading track 0 model from MODEL --  Model from alignment file /projects/compbio/tmp/tmp-build-weighted-model-alpha-16177/tmp.a2m
FIM_method 5 (the generic node) not available in model.
 Tables not modified.
T0113.t2k-2d.mod(1595):  Reading track 1 model from MODEL -- Model from 2nd structure file T0113.t2k.2d.rdb
Calculating Distances (. = 1000 sequences)
.make: *** Deleting file `T0113.t2k-2track.dist'
make: *** [T0113.t2k-2track.dist] Terminated
hmmscore T0113.t2k-2track \
	-trackmod T0113.t2k-w0.5.mod,T0113.t2k-2d.mod \
	-db /projects/compbio/experiments/models.97/indexes/t99.seqs,/projects/compbio/experiments/models.97/indexes/t99.2ds \
	-alphabet protein,EHL2 \
	-trackcoeff 0.5,0.5 \
	-sw 2 -dpstyle 0 \
	-fim_method_score 5 -insert_method_score 5 \
	-select_score 4 -Emax 40.
SAM: hmmscore v3.2 (July 31, 2000) compiled 08/04/00_11:31:33
T0113.t2k-w0.5.mod(21):  Reading track 0 model from MODEL --  Model from alignment file /projects/compbio/tmp/tmp-build-weighted-model-alpha-16177/tmp.a2m
FIM_method 5 (the generic node) not available in model.
 Tables not modified.
Insert_method 5 (the generic node) not available in model.
 Tables not modified.
T0113.t2k-2d.mod(1595):  Reading track 1 model from MODEL -- Model from 2nd structure file T0113.t2k.2d.rdb
Calculating Distances (. = 1000 sequences)
....
Average NLL-Simple NULL score:        -17.468609
Database has 3421 sequences with 771403 residues.