transrate 0.0.2 → 0.0.3

data/lib/transrate/transrater.rb

@@ -2,15 +2,17 @@ module Transrate
 
   class Transrater
 
-    def initialize path
-      @assembly = Assembly.new path
+    def initialize assembly, reference, left, right, insertsize=nil, insertsd=nil
+      @assembly = Assembly.new assembly
+      @reference = Assembly.new reference
       @read_metrics = ReadMetrics.new @assembly
-      @comparative_metrics = ComparativeMetrics.new @assembly
+      @comparative_metrics = ComparativeMetrics.new(@assembly, @reference)
+      self.run(left, right, insertsize, insertsd)
     end
 
-    def run
+    def run left, right, insertsize=nil, insertsd=nil
       @assembly.run
-      @read_metrics.run
+      @read_metrics.run(left, right)
       @comparative_metrics.run
     end
 

data/lib/transrate/version.rb

@@ -4,7 +4,7 @@ module Transrate
   module VERSION
     MAJOR = 0
     MINOR = 0
-    PATCH = 2
+    PATCH = 3
     BUILD = nil
 
     STRING = [MAJOR, MINOR, PATCH, BUILD].compact.join('.')

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: transrate
 version: !ruby/object:Gem::Version
-  version: 0.0.2
+  version: 0.0.3
   prerelease: 
 platform: ruby
 authors: