echo "WeightingRegularizer /projects/compbio/lib/recode3.20comp" > tmp.script
echo "SequenceWeight EntropyWeight 0.5 10.0" >> tmp.script
echo "ReadA2M T0111.t2k.a2m.gz" >>  tmp.script
echo "SavingsRegularizer /projects/compbio/lib/recode3.20comp" >> tmp.script
echo "PrintSavings T0111.t2k.saves" >> tmp.script
echo "exit" >> tmp.script
estimate-dist < tmp.script
# command:Weighting regularizer set to recode3.20comp
# command:Sequence weighting on input set to EntropyWeight(0.5, 10)
# command:Reading A2M format from T0111.t2k.a2m.gz
% using regularizer recode3.20comp
% T0111.t2k.a2m.gz with 198 sequences, total weight= 2.91204 avg weight= 0.0147073
 After reading T0111.t2k.a2m.gz, have 431 columns, totalling 1013.43
Using SequenceWeight EntropyWeight(0.5, 10)
Using regularizer recode3.20compfor sequence weight regularizer.
# command:Savings regularizer set to recode3.20comp
# command:% Computing savings using regularizer recode3.20comp
Printed 431 columns to T0111.t2k.saves
# command:rm tmp.script
if test -e T0111.t2k-logo.labels ;\
	then makelogo -b 60 -t T0111.t2k -o T0111.t2k-logo.eps -l T0111.t2k-logo.labels T0111.t2k.saves  ;\
	else makelogo -b 60 -t T0111.t2k -o T0111.t2k-logo.eps -lf T0111.t2k.2d.seq T0111.t2k.saves ;\
fi
rm T0111.t2k.saves