InFilePrefix
OutFilePrefix

SetSeed		# Start from a random starting point.
		# Set the seed to a specific value if you need
		# deterministic behavior for debugging.

ReadAlphabet /projects/compbio/lib/alphabet/str.alphabet
ReadBackgroundProbs /projects/compbio/lib/alphabet/dunbrack-in-scop.backgrounds
time

ReadNeuralNet networks/dunbrack-30pc-1763-t06-thin90-IDGaaH13-3-13-7-13-9-13-11-tr23-str2-from-empty.net

#ReadParams /cse/faculty/karplus/dna/predict-2nd/testing/params/7-jul-05.params
#SetOverhang
#time

ReadToSet test
InFilePrefix  /projects/compbio/experiments/protein-predict/predict-2nd/testing/training-data/
Include dunbrack-30pc-1763-1.t06-thin90-str2

time
ReportTestByChain quality-reports/dunbrack-30pc-1763-t06-thin90-IDGaaH13-3-13-7-13-9-13-11-tr23-str2-by-chain.test
TestNet
time