bio-ucsc-api 0.2.0 → 0.2.1

data/spec/caepb2_spec.rb

@@ -0,0 +1,515 @@
+require "bio-ucsc"
+require "pp"
+
+describe "Bio::Ucsc::CaePb2" do
+
+  before(:all) do
+    Bio::Ucsc::CaePb2::DBConnection.connect
+  end
+
+  describe "Bio::Ucsc::CaePb2::All_est" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::All_est.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::All_mrna" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::All_mrna.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Author" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::Author.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::BlastCe6SG" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::BlastCe6SG.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Cds" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::Cds.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Cell" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::Cell.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::ChainCe6" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrUn:1-10,000,000")
+        result = Bio::Ucsc::CaePb2::ChainCe6.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::ChainCe6Link" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrUn:1-10,000,000")
+
+        result = Bio::Ucsc::CaePb2::ChainCe6Link.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::ChromInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::ChromInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::CtgPos2" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::CtgPos2.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Description" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::Description.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Development" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::Development.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::EstOrientInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::EstOrientInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Gap" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrUn:1-10,000,000")
+        result = Bio::Ucsc::CaePb2::Gap.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::GbCdnaInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::GbCdnaInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::GbExtFile" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::GbExtFile.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::GbLoaded" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::GbLoaded.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::GbMiscDiff" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::GbMiscDiff.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::GbSeq" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::GbSeq.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::GbStatus" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::GbStatus.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::GbWarn" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::GbWarn.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Gc5Base" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::Gc5Base.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::GeneName" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::GeneName.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Gold" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrUn:1-10,000,000")
+        result = Bio::Ucsc::CaePb2::Gold.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Grp" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::Grp.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::HgFindSpec" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::HgFindSpec.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::History" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::History.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::ImageClone" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::ImageClone.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::IntronEst" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::IntronEst.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Keyword" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::Keyword.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Library" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::Library.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::MrnaClone" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::MrnaClone.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::MrnaOrientInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::MrnaOrientInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::NetCe6" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::NetCe6.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Organism" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::Organism.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::ProductName" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::ProductName.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::RefLink" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::RefLink.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::RefSeqStatus" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::RefSeqStatus.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::RefSeqSummary" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::RefSeqSummary.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Sex" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::Sex.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::SimpleRepeat" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::SimpleRepeat.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Source" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::Source.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::TableDescriptions" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::TableDescriptions.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::Tissue" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::Tissue.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::TrackDb" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::TrackDb.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::WindowmaskerSdust" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::WindowmaskerSdust.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::XenoMrna" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::XenoMrna.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::XenoRefFlat" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::XenoRefFlat.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::XenoRefGene" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::XenoRefGene.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::CaePb2::XenoRefSeqAli" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::CaePb2::XenoRefSeqAli.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+end