class Bio::Ucsc::SacCer2::T2micron_gold
Public Class Methods
find_all_by_interval(interval, opt = {:partial => true})
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# File lib/bio-ucsc/saccer2/t2micron_gold.rb, line 21 def self.find_all_by_interval(interval, opt = {:partial => true}); interval = Bio::Ucsc::Gi.wrap(interval) find_first_or_all_by_interval(interval, :all, opt) end
find_by_interval(interval, opt = {:partial => true})
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# File lib/bio-ucsc/saccer2/t2micron_gold.rb, line 17 def self.find_by_interval(interval, opt = {:partial => true}); interval = Bio::Ucsc::Gi.wrap(interval) find_first_or_all_by_interval(interval, :first, opt) end
find_first_or_all_by_interval(interval, first_all, opt)
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# File lib/bio-ucsc/saccer2/t2micron_gold.rb, line 25 def self.find_first_or_all_by_interval(interval, first_all, opt); interval = Bio::Ucsc::Gi.wrap(interval) zstart = interval.zero_start zend = interval.zero_end if opt[:partial] == true where = <<-SQL chrom = :chrom AND bin in (:bins) AND ((chromStart BETWEEN :zstart AND :zend) OR (chromEnd BETWEEN :zstart AND :zend) OR (chromStart <= :zstart AND chromEnd >= :zend)) SQL else where = <<-SQL chrom = :chrom AND ((chromStart BETWEEN :zstart AND :zend) AND (chromEnd BETWEEN :zstart AND :zend)) SQL end cond = { :chrom => interval.chrom, :bins => Ucsc::UcscBin.bin_all(zstart, zend), :zstart => zstart, :zend => zend,} self.find(first_all, { :select => "*", :conditions => [where, cond], }) end