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

ReadNeuralNet dssp/networks/dunbrack-1795-1+2-IDaaHr-5-15-7-15-9-15-13-ebghstl-from-empty.net
NameNet t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net

ReadParams params/16-dec-01-anneal
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 t2k-5651.t2k-thin90-dssp

ReportNetQualityForCrossTrainTo quality-reports/t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.train


TrainNet 20
ReportNeuralNet networks/t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net

CenterWeights
TrainNet 20
ReportNeuralNet networks/t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net

CenterWeights
TrainNet 20
ReportNeuralNet networks/t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net

CenterWeights
TrainNet 20
ReportNeuralNet networks/t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net

CenterWeights
TrainNet 20
ReportNeuralNet networks/t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net

CenterWeights
TrainNet 30
ReportNeuralNet networks/t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net

CenterWeights
TrainNet 30
ReportNeuralNet networks/t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net

CenterWeights
TrainNet 30
ReportNeuralNet networks/t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net

CenterWeights
TrainNet 30
ReportNeuralNet networks/t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net

ReportTrainByChain quality-reports/t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.by-chain
ReportUnitUsageTo quality-reports/t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.unit-usage

TestNet

ReportTrainByChain
ReportQvsPhatTo 
ReportUnitUsageTo