InFilePrefix  /cse/faculty/karplus/dna/predict-2nd/testing/
OutFilePrefix /cse/faculty/karplus/dna/predict-2nd/testing/

ReadNeuralNet networks/aa-1-aa-t2k-empty.net
NameNet dunbrack-2752-aa-1-aa-t2k-trained.net

ReadParams params/2-feb-00-fast
SetOverhang


# Note: the following includes read the training set(s),
# and, in doing so, reset the InFilePrefix

ReadToSet train
InFilePrefix  /cse/faculty/karplus/dna/predict-2nd/testing/training-data/
Include dunbrack-2752.guide-t2k-thin90

ReportNetQualityForCrossTrainTo quality-reports/dunbrack-2752-aa-1-aa-t2k-trained.quality


TrainNet 20
ReportNeuralNet networks/dunbrack-2752-aa-1-aa-t2k-trained.net

TrainNet 30
ReportNeuralNet networks/dunbrack-2752-aa-1-aa-t2k-trained.net

TrainNet 20
ReportNeuralNet networks/dunbrack-2752-aa-1-aa-t2k-trained.net


ReportQvsPhatTo quality-reports/dunbrack-2752-aa-1-aa-t2k-trained.q-vs-phat
ReportUnitUsageTo quality-reports/dunbrack-2752-aa-1-aa-t2k-trained.unit-usage
TestNet
ReportTrainByChain
ReportQvsPhatTo 
ReportUnitUsageTo