dataset upload tests added

1 files changed, 55 insertions, 7 deletions

diff --git a/test/dataset.rb b/test/dataset.rb
index be68f7d..e41db8e 100644
--- a/test/dataset.rb
+++ b/test/dataset.rb
@@ -1,36 +1,73 @@
 require 'test/unit'
 $LOAD_PATH << File.join(File.dirname(__FILE__),'..','lib')
 require File.join File.dirname(__FILE__),'..','lib','opentox-client.rb'
+DATASET = "http://ot-dev.in-silico.ch/dataset"
+DATA_DIR = File.join(File.dirname(__FILE__),"data")
+# TODO: add subjectids
+
 
 class DatasetTest < Test::Unit::TestCase
 
   def test_all
-    datasets = OpenTox::Dataset.all "http://ot-dev.in-silico.ch/dataset"
+    datasets = OpenTox::Dataset.all DATASET
     assert_equal OpenTox::Dataset, datasets.first.class
   end
 
   def test_create_empty
-    service_uri = "http://ot-dev.in-silico.ch/dataset" 
-    d = OpenTox::Dataset.create service_uri
+    d = OpenTox::Dataset.create DATASET
     assert_equal OpenTox::Dataset, d.class
-    assert_match /#{service_uri}/, d.uri.to_s
+    assert_match /#{DATASET}/, d.uri.to_s
     d.delete
   end
 
   def test_create_from_file
-    d = OpenTox::Dataset.from_file "http://ot-dev.in-silico.ch/dataset", File.join(File.dirname(__FILE__),"data","EPAFHM.mini.csv")
+    d = OpenTox::Dataset.from_file DATASET, File.join(DATA_DIR,"EPAFHM.mini.csv")
     assert_equal OpenTox::Dataset, d.class
     assert_equal d.uri, d[RDF::XSD.anyURI]
-    assert_equal "EPAFHM.mini",  d.metadata[RDF::URI("http://purl.org/dc/elements/1.1/title")].to_s # DC.title is http://purl.org/dc/terms/title
+    assert_equal "EPAFHM.mini",  d.metadata[RDF::URI("http://purl.org/dc/elements/1.1/title")].first.to_s # DC.title is http://purl.org/dc/terms/title
+    assert_equal "EPAFHM.mini",  d[RDF::URI("http://purl.org/dc/elements/1.1/title")]
     d.delete
     assert_raise OpenTox::NotFoundError do
       d.get
     end
   end
 
+  def test_from_yaml
+    @dataset = OpenTox::Dataset.from_file DATASET, File.join(DATA_DIR,"hamster_carcinogenicity.yaml")
+    assert_equal OpenTox::Dataset, @dataset.class
+    assert_equal "hamster_carcinogenicity", @dataset[RDF::URI("http://purl.org/dc/elements/1.1/title")]
+    hamster_carc?
+    @dataset.delete
+  end
+
+=begin
+# TODO: fix (mime type??0 and add Egons example
+  def test_sdf_with_multiple_features
+    @dataset = OpenTox::Dataset.from_file DATASET, "#{DATA_DIR}/CPDBAS_v5c_1547_29Apr2008part.sdf"
+    assert_equal OpenTox::Dataset, @dataset.class
+    puts @dataset.features.size
+    puts @dataset.compounds.size
+    @dataset.delete
+  end
+=end
+
+  def test_multicolumn_csv
+    @dataset = OpenTox::Dataset.from_file DATASET, "#{DATA_DIR}/multicolumn.csv"
+    assert_equal 5, @dataset.features.size
+    assert_equal 4, @dataset.compounds.size
+    @dataset.delete
+  end
+
+  def test_from_csv
+    @dataset = OpenTox::Dataset.from_file DATASET, "#{DATA_DIR}/hamster_carcinogenicity.csv"
+    assert_equal OpenTox::Dataset, @dataset.class
+    hamster_carc?
+    @dataset.delete
+  end
+
 =begin
   def test_save
-    d = OpenTox::Dataset.create "http://ot-dev.in-silico.ch/dataset"
+    d = OpenTox::Dataset.create DATASET
     d.metadata
     d.metadata[RDF::DC.title] = "test"
     d.save
@@ -40,6 +77,17 @@ class DatasetTest < Test::Unit::TestCase
     d.delete
   end
 =end
+=begin
+=end
 
 
+  def hamster_carc?
+    assert_kind_of OpenTox::Dataset, @dataset
+    #require 'yaml'
+    #puts @dataset.data_entries.to_yaml
+    assert_equal 85, @dataset.data_entries.size
+    assert_equal 85, @dataset.compounds.size
+    assert_equal 1, @dataset.features.size
+    assert_equal @dataset.uri, @dataset[RDF::XSD.anyURI]
+  end
 end