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authorChristoph Helma <helma@in-silico.ch>2015-10-08 10:43:43 +0200
committerChristoph Helma <helma@in-silico.ch>2015-10-08 10:43:43 +0200
commit1a56148aadef031c4f487bc23fda43f4ac5b7369 (patch)
tree3555c5883ed0c292b105c40c185ebba3e5bd4e3e /test/fminer-long.rb
parent394d564699756288569169ff3e198d6d7702f092 (diff)
parente3217075b602a950a0ee995fcfa731d97b5ba3eb (diff)
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+require_relative "setup.rb"
+
+class FminerTest < MiniTest::Test
+
+ def test_fminer_multicell
+ #skip "multicell segfaults"
+ # TODO aborts, probably fminer
+ # or OpenBabel segfault
+ dataset = OpenTox::Dataset.from_csv_file File.join(DATA_DIR,"multi_cell_call.csv")
+ feature_dataset = OpenTox::Algorithm::Fminer.bbrc(dataset)#, :min_frequency => 15)
+ p feature_dataset.training_parameters
+ assert_equal dataset.compound_ids, feature_dataset.compound_ids
+ dataset.delete
+ feature_dataset.delete
+ end
+
+ def test_fminer_isscan
+ dataset = OpenTox::Dataset.from_csv_file File.join(DATA_DIR,"ISSCAN-multi.csv")
+ feature_dataset = OpenTox::Algorithm::Fminer.bbrc(dataset)#, :min_frequency => 15)
+ assert_equal feature_dataset.compounds.size, dataset.compounds.size
+ p feature_dataset.features.size
+ p feature_dataset.training_parameters
+ dataset.delete
+ feature_dataset.delete
+ end
+
+ def test_fminer_kazius
+ dataset = OpenTox::Dataset.from_csv_file File.join(DATA_DIR,"kazius.csv")
+ # TODO reactivate default settings
+ feature_dataset = OpenTox::Algorithm::Fminer.bbrc(dataset, :min_frequency => 20)
+ assert_equal feature_dataset.compounds.size, dataset.compounds.size
+ feature_dataset = Dataset.find feature_dataset.id
+ assert feature_dataset.data_entries.size, dataset.compounds.size
+ dataset.delete
+ feature_dataset.delete
+ end
+
+end