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

ReadNeuralNet networks/dunbrack-in-scop-IDaa13-7-10-9-10-9-10-9-ebghstl-seeded-dssp.net
NameNet dunbrack-in-scop-IDaa13-7-10-9-10-9-10-9-ebghstl-seeded-dssp-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-in-scop.t2k-thin90-dssp

ReportNetQualityForCrossTrainTo quality-reports/dunbrack-in-scop-IDaa13-7-10-9-10-9-10-9-ebghstl-seeded-dssp-trained.quality

freeze 0
freeze 1
unfreeze 2
freeze 3

TrainNet 30
ReportNeuralNet networks/dunbrack-in-scop-IDaa13-7-10-9-10-9-10-9-ebghstl-seeded-dssp-trained.net

unfreeze 0
unfreeze 1
unfreeze 2
unfreeze 3

TrainNet 30
ReportNeuralNet networks/dunbrack-in-scop-IDaa13-7-10-9-10-9-10-9-ebghstl-seeded-dssp-trained.net


TrainNet 30
ReportNeuralNet networks/dunbrack-in-scop-IDaa13-7-10-9-10-9-10-9-ebghstl-seeded-dssp-trained.net


TrainNet 30
ReportNeuralNet networks/dunbrack-in-scop-IDaa13-7-10-9-10-9-10-9-ebghstl-seeded-dssp-trained.net


TrainNet 30
ReportNeuralNet networks/dunbrack-in-scop-IDaa13-7-10-9-10-9-10-9-ebghstl-seeded-dssp-trained.net


ReportQvsPhatTo quality-reports/dunbrack-in-scop-IDaa13-7-10-9-10-9-10-9-ebghstl-seeded-dssp-trained.q-vs-phat
ReportUnitUsageTo quality-reports/dunbrack-in-scop-IDaa13-7-10-9-10-9-10-9-ebghstl-seeded-dssp-trained.unit-usage
TestNet
ReportTrainByChain
ReportQvsPhatTo 
ReportUnitUsageTo