diff options
| author | Christoph Helma <helma@in-silico.de> | 2010-02-22 17:53:17 +0100 |
|---|---|---|
| committer | Christoph Helma <helma@in-silico.de> | 2010-02-22 17:53:17 +0100 |
| commit | 66af8a8f648c41321189800cd81246f28d046fe6 (patch) | |
| tree | 6b7e3d860209fd4bdd3af6e927f6f64ee64a15ff /lib/algorithm.rb | |
| parent | 8946f755a1b6063d424263924acefce0d0d9d49e (diff) | |
| parent | 53d755065500701a46b2a3754dc1299febe79c43 (diff) | |
authorisation merged from micha
Diffstat (limited to 'lib/algorithm.rb')
| -rw-r--r-- | lib/algorithm.rb | 77 |
1 files changed, 40 insertions, 37 deletions
diff --git a/lib/algorithm.rb b/lib/algorithm.rb index 25ae4cb..ed7b629 100644 --- a/lib/algorithm.rb +++ b/lib/algorithm.rb @@ -1,27 +1,28 @@ module OpenTox - module Algorithm + module Algorithm - class Fminer - include Owl + class Fminer + include Owl - def initialize - super - self.uri = File.join(@@config[:services]["opentox-algorithm"],'fminer') - self.title = "fminer" - self.source = "http://github.com/amaunz/libfminer" - self.parameters = { - "Dataset URI" => { :scope => "mandatory", :value => "dataset_uri" }, - "Feature URI for dependent variable" => { :scope => "mandatory", :value => "feature_uri" } - } - end + def initialize + super + self.uri = File.join(@@config[:services]["opentox-algorithm"],'fminer') + self.title = "fminer" + self.source = "http://github.com/amaunz/libfminer" + self.parameters = { + "Dataset URI" => { :scope => "mandatory", :value => "dataset_uri" }, + "Feature URI for dependent variable" => { :scope => "mandatory", :value => "feature_uri" } + } + end - def self.create_feature_dataset(params) - RestClient.post params[:feature_generation_uri], :dataset_uri => params[:dataset_uri], :feature_uri => params[:feature_uri] - end - end + def self.create_feature_dataset(params) + resource = RestClient::Resource.new(params[:feature_generation_uri], :user => @@users[:users].keys[0], :password => @@users[:users].values[0]) + resource.post :dataset_uri => params[:dataset_uri], :feature_uri => params[:feature_uri] + end + end - class Lazar - include Owl + class Lazar + include Owl def initialize super @@ -40,26 +41,28 @@ module OpenTox def self.create_model(params) LOGGER.debug params - @uri = RestClient.post File.join(@@config[:services]["opentox-algorithm"], "lazar"), :dataset_uri => params[:dataset_uri], :feature_uri => params[:feature_uri], :feature_generation_uri => File.join(@@config[:services]["opentox-algorithm"], "fminer") + #@uri = RestClient.post File.join(@@config[:services]["opentox-algorithm"], "lazar"), :dataset_uri => params[:dataset_uri], :feature_uri => params[:feature_uri], :feature_generation_uri => File.join(@@config[:services]["opentox-algorithm"], "fminer") + resource = RestClient::Resource.new(File.join(@@config[:services]["opentox-algorithm"], "lazar"), :user => @@users[:users].keys[0], :password => @@users[:users].values[0]) + @uri = resource.post :dataset_uri => params[:dataset_uri], :feature_uri => params[:feature_uri], :feature_generation_uri => File.join(@@config[:services]["opentox-algorithm"], "fminer") end - end + end - class Similarity - def self.weighted_tanimoto(fp_a,fp_b,p) - common_features = fp_a & fp_b - all_features = fp_a + fp_b - common_p_sum = 0.0 - if common_features.size > 0 - common_features.each{|f| common_p_sum += p[f]} - all_p_sum = 0.0 - all_features.each{|f| all_p_sum += p[f]} - common_p_sum/all_p_sum - else - 0.0 - end - end - end + class Similarity + def self.weighted_tanimoto(fp_a,fp_b,p) + common_features = fp_a & fp_b + all_features = fp_a + fp_b + common_p_sum = 0.0 + if common_features.size > 0 + common_features.each{|f| common_p_sum += p[f]} + all_p_sum = 0.0 + all_features.each{|f| all_p_sum += p[f]} + common_p_sum/all_p_sum + else + 0.0 + end + end + end - end + end end |