bio-ucsc-api 0.2.0 → 0.2.1

data/spec/droyak2_spec.rb

@@ -0,0 +1,558 @@
+require "bio-ucsc"
+require "pp"
+
+describe "Bio::Ucsc::DroYak2" do
+
+  before(:all) do
+    Bio::Ucsc::DroYak2::DBConnection.connect
+  end
+
+  describe "Bio::Ucsc::DroYak2::All_est" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::All_est.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::All_mrna" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::All_mrna.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Author" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Author.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::BlastDm2FB" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::BlastDm2FB.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Cds" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Cds.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Cell" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Cell.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::ChainDm3" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chr2L:1-10,000,000")
+        result = Bio::Ucsc::DroYak2::ChainDm3.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::ChainDm3Link" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chr2L:1-10,000,000")
+        result = Bio::Ucsc::DroYak2::ChainDm3Link.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::ChromInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::ChromInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Contamination" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Contamination.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Description" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Description.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Development" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Development.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Est" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chr2L:1-10,000,000")
+        result = Bio::Ucsc::DroYak2::Est.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::EstOrientInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::EstOrientInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Gap" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chr2L:1-10,000,000")
+        result = Bio::Ucsc::DroYak2::Gap.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::GbCdnaInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::GbCdnaInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::GbExtFile" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::GbExtFile.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::GbLoaded" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::GbLoaded.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::GbMiscDiff" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::GbMiscDiff.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::GbSeq" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::GbSeq.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::GbStatus" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::GbStatus.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::GbWarn" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::GbWarn.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Gc5Base" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Gc5Base.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::GeneName" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::GeneName.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Genscan" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Genscan.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::GenscanPep" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::GenscanPep.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Gold" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chr2L:1-10,000,000")
+        result = Bio::Ucsc::DroYak2::Gold.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Grp" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Grp.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::HgFindSpec" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::HgFindSpec.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::History" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::History.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::ImageClone" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::ImageClone.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::IntronEst" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chr2L:1-10,000,000")
+        result = Bio::Ucsc::DroYak2::IntronEst.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Keyword" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Keyword.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Library" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Library.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Mrna" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chr2L:1-10,000,000")
+        result = Bio::Ucsc::DroYak2::Mrna.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::MrnaClone" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::MrnaClone.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::MrnaOrientInfo" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::MrnaOrientInfo.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::NetDm3" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::NetDm3.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Organism" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Organism.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::ProductName" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::ProductName.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::RefLink" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::RefLink.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::RefSeqStatus" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::RefSeqStatus.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::RefSeqSummary" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::RefSeqSummary.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Rmsk" do
+    context ".find_by_interval" do
+      it 'returns the first records' do
+        gi = Bio::GenomicInterval.parse("chr2L:1-10,000,000")
+        result = Bio::Ucsc::DroYak2::Rmsk.find_by_interval gi
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Sex" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Sex.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::SimpleRepeat" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::SimpleRepeat.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Source" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Source.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::TableDescriptions" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::TableDescriptions.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::Tissue" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::Tissue.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::TrackDb" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::TrackDb.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::XenoMrna" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::XenoMrna.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::XenoRefFlat" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::XenoRefFlat.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::XenoRefGene" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::XenoRefGene.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+  describe "Bio::Ucsc::DroYak2::XenoRefSeqAli" do
+    context ".first" do
+      it 'returns the first records' do
+        result = Bio::Ucsc::DroYak2::XenoRefSeqAli.first
+        pp result
+        result.should be_true
+      end
+    end
+  end 
+
+end