ReadAlphabet /projects/compbio/lib/alphabet/str.alphabet

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

ReadNeuralNet str/networks/dunbrack-in-scop-IDaa13-7-10-9-10-9-str-trained.net
NameNet dunbrack-in-scop-IDaa13-7-10-9-10-9-str-trained2.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-in-scop.t2k-thin90-str

ReportNetQualityForCrossTrainTo quality-reports/dunbrack-in-scop-IDaa13-7-10-9-10-9-str-trained2.quality

freeze 0
unfreeze 1
freeze 2

TrainNet 30
ReportNeuralNet networks/dunbrack-in-scop-IDaa13-7-10-9-10-9-str-trained2.net

unfreeze 0
unfreeze 1
unfreeze 2


TrainNet 30
ReportNeuralNet networks/dunbrack-in-scop-IDaa13-7-10-9-10-9-str-trained2.net


TrainNet 30
ReportNeuralNet networks/dunbrack-in-scop-IDaa13-7-10-9-10-9-str-trained2.net


TrainNet 30
ReportNeuralNet networks/dunbrack-in-scop-IDaa13-7-10-9-10-9-str-trained2.net


TrainNet 30
ReportNeuralNet networks/dunbrack-in-scop-IDaa13-7-10-9-10-9-str-trained2.net


ReportQvsPhatTo quality-reports/dunbrack-in-scop-IDaa13-7-10-9-10-9-str-trained2.q-vs-phat
ReportUnitUsageTo quality-reports/dunbrack-in-scop-IDaa13-7-10-9-10-9-str-trained2.unit-usage
TestNet
ReportTrainByChain
ReportQvsPhatTo 
ReportUnitUsageTo