bio-ucsc-api 0.2.0 → 0.2.1

data/spec/susscr2_spec.rb

@@ -0,0 +1,623 @@
+require "bio-ucsc"
+require "pp"
+
+describe "Bio::Ucsc::SusScr2" do
+
+  before(:all) do
+    Bio::Ucsc::SusScr2::DBConnection.connect
+  end
+
+  describe "Bio::Ucsc::SusScr2::All_est" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::All_est.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::All_mrna" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::All_mrna.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Author" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Author.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::BlastHg18KG" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::BlastHg18KG.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Cds" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Cds.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Cell" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Cell.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::ChainBosTau4" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::ChainBosTau4.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::ChainBosTau4Link" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::ChainBosTau4Link.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::ChainHg19" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::ChainHg19.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::ChainHg19Link" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::ChainHg19Link.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::ChainMm9" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::ChainMm9.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::ChainMm9Link" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::ChainMm9Link.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::ChainMonDom5" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::ChainMonDom5.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::ChainMonDom5Link" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::ChainMonDom5Link.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::ChromInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::ChromInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::CpgIslandExt" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::CpgIslandExt.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::CtgPos2" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::CtgPos2.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Description" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Description.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Development" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Development.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::EnsGene" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::EnsGene.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::EnsGtp" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::EnsGtp.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::EnsPep" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::EnsPep.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Est" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrX:1-10,000,000")
+        result = Bio::Ucsc::SusScr2::Est.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::EstOrientInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::EstOrientInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Gap" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Gap.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::GbCdnaInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::GbCdnaInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::GbExtFile" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::GbExtFile.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::GbLoaded" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::GbLoaded.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::GbMiscDiff" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::GbMiscDiff.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::GbSeq" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::GbSeq.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::GbStatus" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::GbStatus.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::GbWarn" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::GbWarn.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Gc5Base" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Gc5Base.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::GeneName" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::GeneName.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Gold" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Gold.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Grp" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Grp.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::HgFindSpec" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::HgFindSpec.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::History" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::History.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::ImageClone" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::ImageClone.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::IntronEst" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrX:1-10,000,000")
+        result = Bio::Ucsc::SusScr2::IntronEst.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Keyword" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Keyword.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Library" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Library.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Mrna" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrX:1-10,000,000")
+        result = Bio::Ucsc::SusScr2::Mrna.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::MrnaClone" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::MrnaClone.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::MrnaOrientInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::MrnaOrientInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::NestedRepeats" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::NestedRepeats.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::NetBosTau4" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::NetBosTau4.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::NetHg19" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::NetHg19.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::NetMm9" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::NetMm9.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::NetMonDom5" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::NetMonDom5.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::NscanGene" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::NscanGene.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Organism" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Organism.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::ProductName" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::ProductName.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Rmsk" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Rmsk.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Sex" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Sex.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::SimpleRepeat" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::SimpleRepeat.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Source" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Source.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::TableDescriptions" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::TableDescriptions.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::Tissue" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::Tissue.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::TrackDb" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::TrackDb.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::SusScr2::XenoMrna" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::SusScr2::XenoMrna.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+end