bio-ucsc-api 0.2.0 → 0.2.1

data/spec/pripac1_spec.rb

@@ -0,0 +1,621 @@
+require "bio-ucsc"
+require "pp"
+
+describe "Bio::Ucsc::PriPac1" do
+
+  before(:all) do
+    Bio::Ucsc::PriPac1::DBConnection.connect
+  end
+
+  describe "Bio::Ucsc::PriPac1::All_est" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::All_est.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::All_mrna" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::All_mrna.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Author" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Author.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::BlastCe6SG" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::BlastCe6SG.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Cds" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Cds.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Cell" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Cell.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::ChainCaePb1" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrUn:1-10,000,000")
+        result = Bio::Ucsc::PriPac1::ChainCaePb1.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::ChainCaePb1Link" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrUn:1-10,000,000")
+        result = Bio::Ucsc::PriPac1::ChainCaePb1Link.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::ChainCaeRem2" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrUn:1-10,000,000")
+        result = Bio::Ucsc::PriPac1::ChainCaeRem2.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::ChainCaeRem2Link" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrUn:1-10,000,000")
+        result = Bio::Ucsc::PriPac1::ChainCaeRem2Link.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::ChainCb3" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrUn:1-10,000,000")
+        result = Bio::Ucsc::PriPac1::ChainCb3.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::ChainCb3Link" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrUn:1-10,000,000")
+        result = Bio::Ucsc::PriPac1::ChainCb3Link.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::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::PriPac1::ChainCe6.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::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::PriPac1::ChainCe6Link.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::ChromInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::ChromInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::CtgPos2" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::CtgPos2.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Description" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Description.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Development" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Development.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::EstOrientInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::EstOrientInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::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::PriPac1::Gap.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::GbCdnaInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::GbCdnaInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::GbExtFile" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::GbExtFile.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::GbLoaded" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::GbLoaded.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::GbMiscDiff" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::GbMiscDiff.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::GbSeq" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::GbSeq.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::GbStatus" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::GbStatus.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::GbWarn" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::GbWarn.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Gc5Base" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Gc5Base.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::GeneName" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::GeneName.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::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::PriPac1::Gold.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Grp" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Grp.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::HgFindSpec" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::HgFindSpec.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::History" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::History.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::ImageClone" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::ImageClone.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::IntronEst" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::IntronEst.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Keyword" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Keyword.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Library" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Library.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::MrnaClone" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::MrnaClone.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::MrnaOrientInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::MrnaOrientInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::NetCaePb1" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::NetCaePb1.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::NetCaeRem2" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::NetCaeRem2.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::NetCb3" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::NetCb3.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::NetCe6" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::NetCe6.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Organism" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Organism.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::ProductName" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::ProductName.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Quality" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Quality.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::RefLink" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::RefLink.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::RefSeqStatus" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::RefSeqStatus.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::RefSeqSummary" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::RefSeqSummary.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Rmsk" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chrUn:1-10,000,000")
+        result = Bio::Ucsc::PriPac1::Rmsk.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Sex" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Sex.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::SimpleRepeat" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::SimpleRepeat.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Source" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Source.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::TableDescriptions" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::TableDescriptions.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::Tissue" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::Tissue.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::TrackDb" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::TrackDb.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::XenoMrna" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::XenoMrna.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::XenoRefFlat" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::XenoRefFlat.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::XenoRefGene" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::XenoRefGene.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::PriPac1::XenoRefSeqAli" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::PriPac1::XenoRefSeqAli.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+end