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

ReadNeuralNet networks/overrep-2500-IDaa13-5-10-7-10-5-10-11-ehl2-seeded5-stride-trained.net
NameNet overrep-2500-IDaa13-5-10-7-10-5-10-11-ehl2-test-stride-trained.net

ReadParams params/2-feb-00-fast

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

ReadToSet train
InFilePrefix /projects/compbio/experiments/models.97/pdb/11/119l/
ReadTrain nostruct-align/119l.t99.a2m info/119l.stride-mixed.2d

InFilePrefix /projects/compbio/experiments/models.97/pdb/12/12asA/
ReadTrain nostruct-align/12asA.t99.a2m info/12asA.stride-mixed.2d

SetOverhang

ReportNetQualityForCrossTrainTo quality-reports/overrep-2500-IDaa13-5-10-7-10-5-10-11-ehl2-test-stride.quality


freeze 0
freeze 1
unfreeze 2
unfreeze 3
TrainNet 50

ReportTrainByChain quality-reports/overrep-2500-IDaa13-5-10-7-10-5-10-11-ehl2-test-stride-trained.by-chain
ReportQvsPhatTo quality-reports/overrep-2500-IDaa13-5-10-7-10-5-10-11-ehl2-test-stride-trained.q-vs-phat
ReportUnitUsageTo quality-reports/overrep-2500-IDaa13-5-10-7-10-5-10-11-ehl2-test-stride-trained.unit-usage

TestNet