Contents

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

Version data entries

6 entries across 6 versions & 1 rubygems

Version	Path
lazar-0.0.7	test/fminer-long.rb
lazar-0.0.6	test/fminer-long.rb
lazar-0.0.5	test/fminer-long.rb
lazar-0.0.4	test/fminer-long.rb
lazar-0.0.3	test/fminer-long.rb
lazar-0.0.1	test/fminer-long.rb