Module: Bio::Ucsc::Rn4

Extended by:
TableClassDetector
Defined in:
lib/bio-ucsc/rn4.rb,
lib/bio-ucsc/rn4/est.rb,
lib/bio-ucsc/rn4/gap.rb,
lib/bio-ucsc/rn5/est.rb,
lib/bio-ucsc/rn5/gap.rb,
lib/bio-ucsc/rn4/gold.rb,
lib/bio-ucsc/rn4/mrna.rb,
lib/bio-ucsc/rn4/rmsk.rb,
lib/bio-ucsc/rn5/gold.rb,
lib/bio-ucsc/rn5/mrna.rb,
lib/bio-ucsc/rn5/rmsk.rb,
lib/bio-ucsc/rn4/chainmm9.rb,
lib/bio-ucsc/rn5/chainmm9.rb,
lib/bio-ucsc/rn4/intronest.rb,
lib/bio-ucsc/rn5/intronest.rb,
lib/bio-ucsc/rn4/chaincanfam2.rb,
lib/bio-ucsc/rn4/chaincavpor3.rb,
lib/bio-ucsc/rn4/chaindanrer4.rb,
lib/bio-ucsc/rn4/chainequcab1.rb,
lib/bio-ucsc/rn4/chaingalgal3.rb,
lib/bio-ucsc/rn4/chainmm9link.rb,
lib/bio-ucsc/rn4/chainmondom4.rb,
lib/bio-ucsc/rn4/chainpantro2.rb,
lib/bio-ucsc/rn4/chainrhemac2.rb,
lib/bio-ucsc/rn5/chaincanfam2.rb,
lib/bio-ucsc/rn5/chaincavpor3.rb,
lib/bio-ucsc/rn5/chaindanrer4.rb,
lib/bio-ucsc/rn5/chainequcab1.rb,
lib/bio-ucsc/rn5/chaingalgal3.rb,
lib/bio-ucsc/rn5/chainmm9link.rb,
lib/bio-ucsc/rn5/chainmondom4.rb,
lib/bio-ucsc/rn5/chainpantro2.rb,
lib/bio-ucsc/rn5/chainrhemac2.rb,
lib/bio-ucsc/rn4/chaincanfam2link.rb,
lib/bio-ucsc/rn4/chaincavpor3link.rb,
lib/bio-ucsc/rn4/chaindanrer4link.rb,
lib/bio-ucsc/rn4/chainequcab1link.rb,
lib/bio-ucsc/rn4/chaingalgal3link.rb,
lib/bio-ucsc/rn4/chainmondom4link.rb,
lib/bio-ucsc/rn4/chainpantro2link.rb,
lib/bio-ucsc/rn4/chainrhemac2link.rb,
lib/bio-ucsc/rn5/chaincanfam2link.rb,
lib/bio-ucsc/rn5/chaincavpor3link.rb,
lib/bio-ucsc/rn5/chaindanrer4link.rb,
lib/bio-ucsc/rn5/chainequcab1link.rb,
lib/bio-ucsc/rn5/chaingalgal3link.rb,
lib/bio-ucsc/rn5/chainmondom4link.rb,
lib/bio-ucsc/rn5/chainpantro2link.rb,
lib/bio-ucsc/rn5/chainrhemac2link.rb

Defined Under Namespace

Classes: ChainCanFam2, ChainCanFam2Link, ChainCavPor3, ChainCavPor3Link, ChainDanRer4, ChainDanRer4Link, ChainEquCab1, ChainEquCab1Link, ChainGalGal3, ChainGalGal3Link, ChainMm9, ChainMm9Link, ChainMonDom4, ChainMonDom4Link, ChainPanTro2, ChainPanTro2Link, ChainRheMac2, ChainRheMac2Link, DBConnection, Est, Gap, Gold, IntronEst, Mrna, Rmsk

Constant Summary collapse

CHROMS = 
%w(chrM chr1 chr2 chr3 chr4 chr5 chr6 chr7 chr8 chr9 chr10
chr11 chr12 chr13 chr14 chr15 chr16 chr17 chr18 chr19 chr20
chrX)

Constants included from TableClassDetector

TableClassDetector::COMMON_CLASS_METHODS, TableClassDetector::PARAMETERS, TableClassDetector::RESERVED_METHODS, TableClassDetector::UPPERCASED_TABLE_PREFIX

Class Method Summary collapse

Methods included from TableClassDetector

bed, const_missing, genepred, generic, psl, rmsk

Class Method Details

.connect(param = Hash.new) ⇒ Object 



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# File 'lib/bio-ucsc/rn4.rb', line 24

def self.connect(param = Hash.new)
  DBConnection.db_adapter = param[:db_adapter] if param[:db_adapter]
  DBConnection.db_host = param[:db_host] if param[:db_host]
  DBConnection.db_username = param[:db_username] if param[:db_username]
  DBConnection.password = param[:password] if param[:password]
  DBConnection.connect
end

.default ⇒ Object 



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# File 'lib/bio-ucsc/rn4.rb', line 20

def self.default
  DBConnection.default
end