diff options
Diffstat (limited to 'test/fminer.rb')
| -rw-r--r-- | test/fminer.rb | 37 |
1 files changed, 23 insertions, 14 deletions
diff --git a/test/fminer.rb b/test/fminer.rb index be61add..663aa03 100644 --- a/test/fminer.rb +++ b/test/fminer.rb @@ -5,20 +5,24 @@ class FminerTest < MiniTest::Test def test_fminer_bbrc dataset = OpenTox::Dataset.new dataset.upload File.join(DATA_DIR,"hamster_carcinogenicity.csv") - assert_equal dataset.uri.uri?, true - - dataset_uri = OpenTox::Algorithm::Fminer.bbrc :dataset_uri => dataset.uri - feature_dataset = OpenTox::Dataset.new dataset_uri - assert_equal dataset_uri.uri?, true + refute_nil dataset.id + + feature_dataset = OpenTox::Algorithm::Fminer.bbrc :dataset => dataset + # TODO do we need tasks here? + #task = OpenTox::Algorithm::Fminer.bbrc :dataset => dataset#.uri + #task.wait + #feature_dataset = task.result + #p task.code + #p feature_dataset.features assert_equal dataset.compounds.size, feature_dataset.compounds.size assert_equal 54, feature_dataset.features.size - assert_equal '[#6&A]-[#6&A]-[#6&A]=[#6&A]', OpenTox::Feature.new(feature_dataset.features.first.uri).title + assert_equal '[#6&A]-[#6&A]-[#6&A]=[#6&A]', feature_dataset.features.first.title compounds = feature_dataset.compounds - smarts = feature_dataset.features.collect{|f| f.title} + smarts = feature_dataset.features.collect{|f| f.smarts} match = OpenTox::Algorithm::Descriptor.smarts_match compounds, smarts compounds.each_with_index do |c,i| smarts.each_with_index do |s,j| - assert_equal match[c.uri][s], feature_dataset.data_entries[i][j].to_i + assert_equal match[i][j], feature_dataset.data_entries[i][j].to_i end end @@ -29,14 +33,19 @@ class FminerTest < MiniTest::Test def test_fminer_last dataset = OpenTox::Dataset.new dataset.upload File.join(DATA_DIR,"hamster_carcinogenicity.csv") - assert_equal dataset.uri.uri?, true - - dataset_uri = OpenTox::Algorithm::Fminer.last :dataset_uri => dataset.uri - feature_dataset = OpenTox::Dataset.new dataset_uri - assert_equal dataset_uri.uri?, true + feature_dataset = OpenTox::Algorithm::Fminer.last :dataset => dataset assert_equal dataset.compounds.size, feature_dataset.compounds.size assert_equal 21, feature_dataset.features.size - assert_equal '[#6&A]-[#6&a]:[#6&a]:[#6&a]:[#6&a]:[#6&a]', OpenTox::Feature.new(feature_dataset.features.first.uri).title + assert_equal '[#6&A]-[#6&a]:[#6&a]:[#6&a]:[#6&a]:[#6&a]', feature_dataset.features.first.smarts + + compounds = feature_dataset.compounds + smarts = feature_dataset.features.collect{|f| f.smarts} + match = OpenTox::Algorithm::Descriptor.smarts_match compounds, smarts + compounds.each_with_index do |c,i| + smarts.each_with_index do |s,j| + assert_equal match[i][j], feature_dataset.data_entries[i][j].to_i + end + end dataset.delete feature_dataset.delete |