diff options
Diffstat (limited to 'test/nanoparticles.rb')
| -rw-r--r-- | test/nanoparticles.rb | 15 |
1 files changed, 9 insertions, 6 deletions
diff --git a/test/nanoparticles.rb b/test/nanoparticles.rb index e1b8788..897552d 100644 --- a/test/nanoparticles.rb +++ b/test/nanoparticles.rb @@ -4,7 +4,7 @@ require_relative "setup.rb" class NanoparticleTest < MiniTest::Test def setup - Import::Enanomapper.import File.join(File.dirname(__FILE__),"data","enm") + #Import::Enanomapper.import File.join(File.dirname(__FILE__),"data","enm") #`mongorestore --db=development #{File.join(File.dirname(__FILE__),"..","dump","production")}` end @@ -23,18 +23,20 @@ class NanoparticleTest < MiniTest::Test def test_create_model training_dataset = Dataset.find_or_create_by(:name => "Protein Corona Fingerprinting Predicts the Cellular Interaction of Gold and Silver Nanoparticles") - feature = Feature.find_or_create_by(name: "7.99 Toxicity (other) ICP-AES", category: "TOX", unit: "mL/ug(Mg)") - model = Model::LazarRegression.create(feature, training_dataset, {:prediction_algorithm => "OpenTox::Algorithm::Regression.local_physchem_regression", :neighbor_algorithm => "nanoparticle_neighbors"}) + #p training_dataset.nanoparticles.size + feature = Feature.find_or_create_by(name: "Net cell association", category: "TOX", unit: "mL/ug(Mg)") + model = Model::LazarRegression.create(feature, training_dataset, {:prediction_algorithm => "OpenTox::Algorithm::Regression.local_weighted_average", :neighbor_algorithm => "nanoparticle_neighbors"}) + #model = Model::LazarRegression.create(feature, training_dataset, {:prediction_algorithm => "OpenTox::Algorithm::Regression.local_physchem_regression", :neighbor_algorithm => "nanoparticle_neighbors"}) nanoparticle = training_dataset.nanoparticles[-34] prediction = model.predict nanoparticle p prediction - #p prediction refute_nil prediction[:value] end def test_validate_model training_dataset = Dataset.find_or_create_by(:name => "Protein Corona Fingerprinting Predicts the Cellular Interaction of Gold and Silver Nanoparticles") - feature = Feature.find_or_create_by(name: "7.99 Toxicity (other) ICP-AES", category: "TOX", unit: "mL/ug(Mg)") + feature = Feature.find_or_create_by(name: "Net cell association", category: "TOX", unit: "mL/ug(Mg)") + #feature = Feature.find_or_create_by(name: "7.99 Toxicity (other) ICP-AES", category: "TOX", unit: "mL/ug(Mg)") model = Model::LazarRegression.create(feature, training_dataset, {:prediction_algorithm => "OpenTox::Algorithm::Regression.local_weighted_average", :neighbor_algorithm => "nanoparticle_neighbors"}) p model cv = RegressionCrossValidation.create model @@ -43,7 +45,8 @@ class NanoparticleTest < MiniTest::Test def test_validate_pls_model training_dataset = Dataset.find_or_create_by(:name => "Protein Corona Fingerprinting Predicts the Cellular Interaction of Gold and Silver Nanoparticles") - feature = Feature.find_or_create_by(name: "7.99 Toxicity (other) ICP-AES", category: "TOX", unit: "mL/ug(Mg)") + feature = Feature.find_or_create_by(name: "Net cell association", category: "TOX", unit: "mL/ug(Mg)") + #feature = Feature.find_or_create_by(name: "7.99 Toxicity (other) ICP-AES", category: "TOX", unit: "mL/ug(Mg)") model = Model::LazarRegression.create(feature, training_dataset, {:prediction_algorithm => "OpenTox::Algorithm::Regression.local_physchem_regression", :neighbor_algorithm => "nanoparticle_neighbors"}) #model = Model::LazarRegression.create(feature, training_dataset, {:prediction_algorithm => "OpenTox::Algorithm::Regression.local_weighted_average", :neighbor_algorithm => "nanoparticle_neighbors"}) p model |