From a6cbe221d074e07f9356ccf1bac336d4f2addd98 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Martin=20G=C3=BCtlein?= <martin.guetlein@gmail.com>
Date: Thu, 7 Jan 2010 13:27:25 +0100
Subject: moved example code to own file

---
 application.rb | 80 +++-------------------------------------------------------
 1 file changed, 4 insertions(+), 76 deletions(-)

(limited to 'application.rb')

diff --git a/application.rb b/application.rb
index 1c7106f..feb19b1 100644
--- a/application.rb
+++ b/application.rb
@@ -1,7 +1,7 @@
 
 require "validation/validation_application.rb"
 require "report/report_application.rb"
-
+require "example.rb"
 
 [ 'rubygems', 'sinatra', 'sinatra/url_for' ].each do |lib|
   require lib
@@ -9,85 +9,13 @@ end
 
 get '/examples/?' do
   content_type "text/plain"
-  Demo.transform_example
+  Example.transform_example
 end
 
 get '/prepare_examples/?' do
-  Demo.prepare_example_resources
+  Example.prepare_example_resources
   "done"
 end
 
-private
 
-class Demo
-  
-  @@file=File.new("data/hamster_carcinogenicity.owl","r")
-  @@model=File.join @@config[:services]["opentox-model"],"1"
-  @@feature="http://www.epa.gov/NCCT/dsstox/CentralFieldDef.html#ActivityOutcome_CPDBAS_Hamster"
-  @@alg = File.join @@config[:services]["opentox-algorithm"],"lazar"
-  @@alg_params = "feature_generation_uri="+File.join(@@config[:services]["opentox-algorithm"],"fminer")
-  @@data=File.join @@config[:services]["opentox-dataset"],"1"
-  @@train_data=File.join @@config[:services]["opentox-dataset"],"2"
-  @@test_data=File.join @@config[:services]["opentox-dataset"],"3"
-  
-  def self.transform_example
-  
-    file = File.new("EXAMPLES", "r")
-    res = ""
-    while (line = file.gets) 
-      res += line
-    end
-    file.close
-    
-    sub = { "validation_service" => @@config[:services]["opentox-validation"], 
-            "validation_id" => "1",
-            "model_uri" => @@model,
-            "dataset_uri" => @@data,
-            "training_dataset_uri" => @@train_data,
-            "test_dataset_uri" => @@test_data,
-            "prediction_feature" => @@feature,
-            "algorithm_uri" => @@alg,
-            "algorithm_params" => @@alg_params,
-            "crossvalidation_id" => "1",}
-    
-    sub.each do |k,v|
-      res.gsub!(/<#{k}>/,v)
-    end
-    res
-  end
-  
-  def self.delete_all(uri_list_service)
-    uri_list = RestClient.get(uri_list_service)
-    uri_list.split("\n").each do |uri|
-      RestClient.delete(uri)
-    end
-  end
-  
-  def self.prepare_example_resources
-    
-    delete_all(@@config[:services]["opentox-dataset"])
-    data = File.read(@@file.path)
-    data_uri = RestClient.post @@config[:services]["opentox-dataset"], data, :content_type => "application/rdf+xml"
-    puts "uploaded dataset "+data_uri
-    raise "failed to prepare demo" unless data_uri==@@data
-    
-    Lib::Validation.auto_migrate!
-    delete_all(@@config[:services]["opentox-model"])
-    vali_uri = RestClient.post File.join(@@config[:services]["opentox-validation"],'/validation/training_test_split'), { :dataset_uri => data_uri,
-                                                         :algorithm_uri => @@alg,
-                                                         :prediction_feature => @@feature,
-                                                         :algorithm_params => @@alg_params }
-    puts "created validation via training test split "+vali_uri
-    raise "failed to prepare demo" unless vali_uri==File.join(@@config[:services]["opentox-validation"],'/validation/1')
-    
-    Lib::Crossvalidation.auto_migrate!
-    cv_uri = RestClient.post File.join(@@config[:services]["opentox-validation"],'/crossvalidation'), { :dataset_uri => data_uri,
-                                                         :algorithm_uri => @@alg,
-                                                         :prediction_feature => @@feature,
-                                                         :algorithm_params => @@alg_params,
-                                                         :num_folds => 5, :stratified => false }
-    puts "created crossvalidation "+cv_uri
-    raise "failed to prepare demo" unless cv_uri==File.join(@@config[:services]["opentox-validation"],'/crossvalidation/1')
-    
-  end
-end
+
-- 
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