diff options
Diffstat (limited to 'test/unit_test.rb')
| -rw-r--r-- | test/unit_test.rb | 189 |
1 files changed, 189 insertions, 0 deletions
diff --git a/test/unit_test.rb b/test/unit_test.rb new file mode 100644 index 0000000..11b0759 --- /dev/null +++ b/test/unit_test.rb @@ -0,0 +1,189 @@ +#TEST_USER = "mgtest" +#TEST_PW = "mgpasswd" +#ENV['RACK_ENV'] = 'test' + +require "rubygems" +require "sinatra" +require "uri" +require "yaml" +require 'application.rb' +require 'test/unit' +require 'rack/test' +require 'lib/test_util.rb' +require 'test/test_examples.rb' + +TEST_USER = "guest" +TEST_PW = "guest" + +#LOGGER = OTLogger.new(STDOUT) +#LOGGER.datetime_format = "%Y-%m-%d %H:%M:%S " +#LOGGER.formatter = Logger::Formatter.new + +module Sinatra + set :raise_errors, false + set :show_exceptions, false +end + +class Exception + def message + errorCause ? errorCause.to_yaml : to_s + end +end + +class ValidationTest < Test::Unit::TestCase + include Rack::Test::Methods + include Lib::TestUtil + + def global_setup + puts "login and upload datasets" + if AA_SERVER + @@subjectid = OpenTox::Authorization.authenticate(TEST_USER,TEST_PW) + raise "could not log in" unless @@subjectid + puts "logged in: "+@@subjectid.to_s + else + puts "AA disabled" + @@subjectid = nil + end + f = File.new("data/hamster_carcinogenicity.mini.csv") + @@data_class_mini = ValidationExamples::Util.upload_dataset(f, @@subjectid) + @@feat_class_mini = ValidationExamples::Util.prediction_feature_for_file(f) + end + + def global_teardown + puts "delete and logout" + OpenTox::Dataset.find(@@data_class_mini,@@subjectid).delete(@@subjectid) if defined?@@data_class_mini + @@cv.delete(@@subjectid) if defined?@@cv + @@report.delete(@@subjectid) if defined?@@report + @@qmrfReport.delete(@@subjectid) if defined?@@qmrfReport + OpenTox::Authorization.logout(@@subjectid) if AA_SERVER + end + + def test_crossvalidation + puts "test_crossvalidation" + #assert_rest_call_error OpenTox::NotFoundError do + # OpenTox::Crossvalidation.find(File.join(CONFIG[:services]["opentox-validation"],"crossvalidation/noexistingid")) + #end + p = { + :dataset_uri => @@data_class_mini, + :algorithm_uri => File.join(CONFIG[:services]["opentox-algorithm"],"lazar"), + :algorithm_params => "feature_generation_uri="+File.join(CONFIG[:services]["opentox-algorithm"],"fminer/bbrc"), + :prediction_feature => @@feat_class_mini, + :num_folds => 2 } + t = OpenTox::SubTask.new(nil,0,1) + def t.progress(pct) + if !defined?@last_msg or @last_msg+3<Time.new + puts "waiting for crossvalidation: "+pct.to_s + @last_msg=Time.new + end + end + def t.waiting_for(task_uri); end + cv = OpenTox::Crossvalidation.create(p, @@subjectid, t) + assert cv.uri.uri? + if @@subjectid + assert_rest_call_error OpenTox::NotAuthorizedError do + OpenTox::Crossvalidation.find(cv.uri) + end + end + cv = OpenTox::Crossvalidation.find(cv.uri, @@subjectid) + assert cv.uri.uri? + if @@subjectid + assert_rest_call_error OpenTox::NotAuthorizedError do + cv.summary(cv) + end + end + summary = cv.summary(@@subjectid) + assert_kind_of Hash,summary + @@cv = cv + end + + def test_crossvalidation_report + #@@cv = OpenTox::Crossvalidation.find("http://local-ot/validation/crossvalidation/48", @@subjectid) + + puts "test_crossvalidation_report" + assert defined?@@cv,"no crossvalidation defined" + assert_kind_of OpenTox::Crossvalidation,@@cv + #assert_rest_call_error OpenTox::NotFoundError do + # OpenTox::CrossvalidationReport.find_for_crossvalidation(@@cv.uri) + #end + if @@subjectid + assert_rest_call_error OpenTox::NotAuthorizedError do + OpenTox::CrossvalidationReport.create(@@cv.uri) + end + end + report = OpenTox::CrossvalidationReport.create(@@cv.uri,@@subjectid) + assert report.uri.uri? + if @@subjectid + assert_rest_call_error OpenTox::NotAuthorizedError do + OpenTox::CrossvalidationReport.find(report.uri) + end + end + report = OpenTox::CrossvalidationReport.find(report.uri,@@subjectid) + assert report.uri.uri? + report2 = OpenTox::CrossvalidationReport.find_for_crossvalidation(@@cv.uri,@@subjectid) + assert_equal report.uri,report2.uri + report3_uri = @@cv.find_or_create_report(@@subjectid) + assert_equal report.uri,report3_uri + @report = report2 + end + + def test_qmrf_report + #@@cv = OpenTox::Crossvalidation.find("http://local-ot/validation/crossvalidation/47", @@subjectid) + + puts "test_qmrf_report" + assert defined?@@cv,"no crossvalidation defined" + + validations = @@cv.metadata[OT.validation] + assert_kind_of Array,validations + assert validations.size==@@cv.metadata[OT.numFolds] + + val = OpenTox::Validation.find(validations[0], @@subjectid) + model_uri = val.metadata[OT.model] + model = OpenTox::Model::Generic.find(model_uri, @@subjectid) + assert model!=nil + + #assert_rest_call_error OpenTox::NotFoundError do + # OpenTox::QMRFReport.find_for_model(model_uri, @@subjectid) + #end + + @@qmrfReport = OpenTox::QMRFReport.create(model_uri, @@subjectid) + end + + ################### utils and overrides ########################## + + def app + Sinatra::Application + end + + # checks RestCallError type + def assert_rest_call_error( ex ) + if ex==OpenTox::NotAuthorizedError and @@subjectid==nil + puts "AA disabled: skipping test for not authorized" + return + end + begin + yield + rescue OpenTox::RestCallError => e + report = e.errorCause + while report.errorCause + report = report.errorCause + end + assert_equal report.errorType,ex.to_s + end + end + + # hack to have a global_setup and global_teardown + def teardown + if((@@expected_test_count-=1) == 0) + global_teardown + end + end + def setup + unless defined?@@expected_test_count + @@expected_test_count = (self.class.instance_methods.reject{|method| method[0..3] != 'test'}).length + global_setup + end + end + +end + + |