scaffolder-test-helpers 0.4.0 → 0.4.1

data/VERSION

@@ -1 +1 @@
-0.4.0
+0.4.1

data/lib/scaffolder/test/annotation.rb

@@ -3,7 +3,7 @@ require 'scaffolder'
 module Scaffolder::Test
   class Annotation
 
-    [:seqname,:start,:end,:strand,:phase,:feature].each do |attribute|
+    [:seqname,:start,:end,:strand,:phase,:feature,:attributes].each do |attribute|
       define_method(attribute) do |*arg|
         unless arg.first
           return @options[attribute]
@@ -27,7 +27,8 @@ module Scaffolder::Test
     def to_gff3_record
       Bio::GFF::GFF3::Record.new(
         self.seqname, nil, self.feature, self.start,
-        self.end,     nil, self.strand,  self.phase)
+        self.end,     nil, self.strand,  self.phase,
+        self.attributes.to_a)
     end
 
   end

data/scaffolder-test-helpers.gemspec

@@ -5,11 +5,11 @@
 
 Gem::Specification.new do |s|
   s.name = %q{scaffolder-test-helpers}
-  s.version = "0.4.0"
+  s.version = "0.4.1"
 
   s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
   s.authors = ["Michael Barton"]
-  s.date = %q{2011-06-07}
+  s.date = %q{2011-06-13}
   s.description = %q{Useful Helper methods and classes for testing scaffolder.}
   s.email = %q{mail@michaelbarton.me.uk}
   s.extra_rdoc_files = [

data/spec/scaffolder/test/annotation_spec.rb

@@ -32,10 +32,20 @@ describe Scaffolder::Test::Annotation do
       its(:feature){should == 'CDS'}
     end
 
+    context "setting gff3 attributes" do
+      subject do
+        described_class.new(:attributes => {:ID => 'gene1'}).attributes
+      end
+
+      its([:ID]){should == 'gene1'}
+    end
+
   end
 
   describe "#to_gff3_record" do
 
+    context "with default parameters" do
+
       subject do
         described_class.new.to_gff3_record
       end
@@ -47,6 +57,24 @@ describe Scaffolder::Test::Annotation do
         subject.should == expected
       end
 
+    end
+
+    context "with attribute parameters set" do
+
+      subject do
+        described_class.new(:attributes => {'ID' => 'gene1'}).to_gff3_record
+      end
+
+      it "should generate a Bio::GFF::GFF3::Record" do
+        subject.attributes.should == [['ID','gene1']]
+      end
+
+      it "should include the attributes correctly in the gff3 string" do
+        subject.to_s.split.last.should == "ID=gene1"
+      end
+
+    end
+
   end
 
   describe "#clone" do

metadata

@@ -1,13 +1,13 @@
 --- !ruby/object:Gem::Specification 
 name: scaffolder-test-helpers
 version: !ruby/object:Gem::Version 
-  hash: 15
+  hash: 13
   prerelease: false
   segments: 
   - 0
   - 4
-  - 0
-  version: 0.4.0
+  - 1
+  version: 0.4.1
 platform: ruby
 authors: 
 - Michael Barton
@@ -15,7 +15,7 @@ autorequire:
 bindir: bin
 cert_chain: []
 
-date: 2011-06-07 00:00:00 -04:00
+date: 2011-06-13 00:00:00 -04:00
 default_executable: 
 dependencies: 
 - !ruby/object:Gem::Dependency