ReadAlphabet /projects/compbio/lib/alphabet/angle.alphabet

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

ReadNeuralNet networks/ang-7-10-7-ebghtl-empty.net
NameNet test-ang-7-10-7-ebghtl.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 test.ang-stride

ReportNetQualityForCrossTrainTo quality-reports/test-ang-7-10-7-ebghtl-trained.quality

TrainNet 30
ReportNeuralNet networks/test-ang-7-10-7-ebghtl-trained.net


ReportQvsPhatTo quality-reports/test-ang-7-10-7-ebghtl-trained.q-vs-phat
ReportUnitUsageTo quality-reports/test-ang-7-10-7-ebghtl-trained.unit-usage
TestNet
ReportTrainByChain
ReportQvsPhatTo 
ReportUnitUsageTo