bio-twobit 0.2.0 → 0.2.2

data/lib/bio/twobit/references/nomleu3.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class NomLeu3 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "nomLeu3"
+        @metadata.name = "nomLeu3"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/nomLeu3/bigZips/nomLeu3.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/ochpri3.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class OchPri3 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "ochPri3"
+        @metadata.name = "ochPri3"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/ochPri3/bigZips/ochPri3.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/orenil2.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class OreNil2 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "oreNil2"
+        @metadata.name = "oreNil2"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/oreNil2/bigZips/oreNil2.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/ornana2.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class OrnAna2 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "ornAna2"
+        @metadata.name = "ornAna2"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/ornAna2/bigZips/ornAna2.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/orycun2.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class OryCun2 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "oryCun2"
+        @metadata.name = "oryCun2"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/oryCun2/bigZips/oryCun2.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/orylat2.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class OryLat2 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "oryLat2"
+        @metadata.name = "oryLat2"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/oryLat2/bigZips/oryLat2.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/otogar3.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class OtoGar3 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "otoGar3"
+        @metadata.name = "otoGar3"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/otoGar3/bigZips/otoGar3.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/oviari4.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class OviAri4 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "oviAri4"
+        @metadata.name = "oviAri4"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/oviAri4/bigZips/oviAri4.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/panpan3.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class PanPan3 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "panPan3"
+        @metadata.name = "panPan3"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/panPan3/bigZips/panPan3.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/pantro6.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class PanTro6 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "panTro6"
+        @metadata.name = "panTro6"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/panTro6/bigZips/panTro6.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/papanu4.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class PapAnu4 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "papAnu4"
+        @metadata.name = "papAnu4"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/papAnu4/bigZips/papAnu4.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/papham1.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class PapHam1 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "papHam1"
+        @metadata.name = "papHam1"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/papHam1/bigZips/papHam1.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/petmar3.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class PetMar3 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "petMar3"
+        @metadata.name = "petMar3"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/petMar3/bigZips/petMar3.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/ponabe2.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class PonAbe2 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "ponAbe2"
+        @metadata.name = "ponAbe2"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/ponAbe2/bigZips/ponAbe2.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/ponabe3.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class PonAbe3 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "ponAbe3"
+        @metadata.name = "ponAbe3"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/ponAbe3/bigZips/ponAbe3.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/pripac1.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class PriPac1 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "priPac1"
+        @metadata.name = "priPac1"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/priPac1/bigZips/priPac1.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/procap1.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class ProCap1 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "proCap1"
+        @metadata.name = "proCap1"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/proCap1/bigZips/proCap1.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/ptevam1.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class PteVam1 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "pteVam1"
+        @metadata.name = "pteVam1"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/pteVam1/bigZips/pteVam1.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/rhemac10.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class RheMac10 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "rheMac10"
+        @metadata.name = "rheMac10"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/rheMac10/bigZips/rheMac10.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/rn6.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class Rn6 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "rn6"
+        @metadata.name = "rn6"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/rn6/bigZips/rn6.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/saccer3.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class SacCer3 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "sacCer3"
+        @metadata.name = "sacCer3"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/sacCer3/bigZips/sacCer3.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/saibol1.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class SaiBol1 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "saiBol1"
+        @metadata.name = "saiBol1"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/saiBol1/bigZips/saiBol1.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/sarhar1.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class SarHar1 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "sarHar1"
+        @metadata.name = "sarHar1"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/sarHar1/bigZips/sarHar1.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/sorara2.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class SorAra2 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "sorAra2"
+        @metadata.name = "sorAra2"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/sorAra2/bigZips/sorAra2.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/spetri2.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class SpeTri2 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "speTri2"
+        @metadata.name = "speTri2"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/speTri2/bigZips/speTri2.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/strpur2.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class StrPur2 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "strPur2"
+        @metadata.name = "strPur2"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/strPur2/bigZips/strPur2.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/susscr11.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class SusScr11 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "susScr11"
+        @metadata.name = "susScr11"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/susScr11/bigZips/susScr11.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/taegut2.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class TaeGut2 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "taeGut2"
+        @metadata.name = "taeGut2"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/taeGut2/bigZips/taeGut2.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/tarsyr2.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class TarSyr2 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "tarSyr2"
+        @metadata.name = "tarSyr2"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/tarSyr2/bigZips/tarSyr2.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/tetnig2.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class TetNig2 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "tetNig2"
+        @metadata.name = "tetNig2"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/tetNig2/bigZips/tetNig2.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/thasir1.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class ThaSir1 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "thaSir1"
+        @metadata.name = "thaSir1"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/thaSir1/bigZips/thaSir1.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/triman1.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class TriMan1 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "triMan1"
+        @metadata.name = "triMan1"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/triMan1/bigZips/triMan1.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/tupbel1.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class TupBel1 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "tupBel1"
+        @metadata.name = "tupBel1"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/tupBel1/bigZips/tupBel1.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/turtru2.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class TurTru2 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "turTru2"
+        @metadata.name = "turTru2"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/turTru2/bigZips/turTru2.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/uusfur1.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class UusFur1 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "uusFur1"
+        @metadata.name = "uusFur1"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/uusFur1/bigZips/uusFur1.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/vicpac2.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class VicPac2 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "vicPac2"
+        @metadata.name = "vicPac2"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/vicPac2/bigZips/vicPac2.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end

data/lib/bio/twobit/references/wuhcor1.rb

@@ -0,0 +1,16 @@
+require_relative "../reference_genome"
+
+module Bio
+  class TwoBit
+    class WuhCor1 < ReferenceGenome
+      def initialize(**kwargs)
+        @metadata      = Metadata.new
+        @metadata.id   = "wuhCor1"
+        @metadata.name = "wuhCor1"
+        @metadata.url  = "https://hgdownload.soe.ucsc.edu/downloads.html"
+        @data_url      = "https://hgdownload.soe.ucsc.edu/goldenPath/wuhCor1/bigZips/wuhCor1.2bit"
+        super(**kwargs)
+      end
+    end
+  end
+end