rbbt-util 5.17.86 → 5.17.87

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA1:
-  metadata.gz: cced53a042d9d2100c16c60e771e2434c2dc1c0d
-  data.tar.gz: 1c39db805a66b025d8e37562affa769ca35fafe8
+  metadata.gz: 7689fb8913a735ad844a7375011fadc522af2bd1
+  data.tar.gz: 55d639ec2c1b722ae054c643fc53c19cca0677dc
 SHA512:
-  metadata.gz: 3ff47c3eb71f3c1f822d9960b99fa0912041a45835d35637a54b0d4aa28f2ae710e24fe6c889b113539864a83d20824456d31ea5d1f0bedf504f0afaf84d36c6
-  data.tar.gz: 30a16905f3f8593a213ddeebfcd0383ca60e38253bd4039505aad0fe1fa61c98775e8d44d95606a35e91b043ce93356b3890f1d67d93712465ef41e8f9c194bd
+  metadata.gz: 8fd8c83197f8a67d00129a27b3bf04a4d9518bb43cee0c20dad31e9cb1ae781466090ef1af0380219c98711ea2db8822427e40a4aa9dbb35b6faa23e77bc1f6f
+  data.tar.gz: d455058547e7e3d111ea74a15a7b0e1b2e1196d7320169207f0199a1add2a91b9bcad0d1b4898b534dc8965f57486df83266c4ad81253a8ffd0af8e4eaaad5ad

data/lib/rbbt/association/index.rb

@@ -184,6 +184,43 @@ module Association
       end
     end
 
+    def filter(value_field = nil, target_value = nil, &block)
+      if block_given?
+        matches = []
+        if value_field
+          through :key, value_field do |key,values|
+            pass = block.call values
+            matches << key if pass
+          end
+        else
+          through do |key,values|
+            pass = block.call [key, values]
+            matches << key if pass
+          end
+        end
+        matches
+
+      else
+        matches = []
+        if target_value
+          target_value = [target_value] unless Array === target_value
+          through :key, value_field do |key,values|
+            pass = (values & target_value).any?
+            matches << key if pass
+          end
+        else
+          through :key, value_field do |key,values|
+            pass = false
+            values.each do |value|
+              pass = true unless value.nil? or value.empty? or value.downcase == 'false'
+            end
+            matches << key if pass
+          end
+        end
+        matches
+      end
+    end
+
     def to_matrix(value_field = nil, &block)
       value_field = fields.first if value_field.nil? and fields.length == 1
       value_pos = identify_field value_field if value_field and String === value_field

data/test/rbbt/association/test_index.rb

@@ -85,5 +85,43 @@ TP53 NFKB1|GLI1 activation|activation true|true
     assert(tsv.to_matrix(false))
   end
 
+  def test_filter_no_block
+    require 'rbbt/sources/tfacts'
+    file = TFacts.regulators
+    tsv = Association.index(EFFECT, EFFECT_OPTIONS.merge(:undirected => false, :source => "SG=~Associated Gene Name", :target => "TG=~Associated Gene Name"), :persist => true)
+    tsv.unnamed = false
+    matches = tsv.filter :directed?
+    assert_equal 2, matches.length
+  end
+
+  def test_filter_no_block_value
+    require 'rbbt/sources/tfacts'
+    file = TFacts.regulators
+    tsv = Association.index(EFFECT, EFFECT_OPTIONS.merge(:undirected => false, :source => "SG=~Associated Gene Name", :target => "TG=~Associated Gene Name"), :persist => true)
+    tsv.unnamed = false
+    matches = tsv.filter :Effect, "inhibition"
+    assert_equal ["MDM2~TP53"], matches
+  end
 
+  def test_filter_block_value_field
+    require 'rbbt/sources/tfacts'
+    file = TFacts.regulators
+    tsv = Association.index(EFFECT, EFFECT_OPTIONS.merge(:undirected => false, :source => "SG=~Associated Gene Name", :target => "TG=~Associated Gene Name"), :persist => true)
+    tsv.unnamed = false
+    matches = tsv.filter :Effect do |value|
+      return value.include? "inhibition"
+    end
+    assert_equal ["MDM2~TP53"], matches
+  end
+
+  def test_filter_block_no_value_field
+    require 'rbbt/sources/tfacts'
+    file = TFacts.regulators
+    tsv = Association.index(EFFECT, EFFECT_OPTIONS.merge(:undirected => false, :source => "SG=~Associated Gene Name", :target => "TG=~Associated Gene Name"), :persist => true)
+    tsv.unnamed = false
+    matches = tsv.filter do |key,values|
+      return values.flatten.include? "inhibition"
+    end
+    assert_equal ["MDM2~TP53"], matches
+  end
 end

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: rbbt-util
 version: !ruby/object:Gem::Version
-  version: 5.17.86
+  version: 5.17.87
 platform: ruby
 authors:
 - Miguel Vazquez
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2015-11-05 00:00:00.000000000 Z
+date: 2015-11-13 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: rake