class Scaffolder::Tool::Validate
Public Class Methods
description()
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# File lib/scaffolder/tool/validate.rb, line 7 def self.description "Validate scaffold for overlapping inserts" end
inserts_overlap?(a,b)
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# File lib/scaffolder/tool/validate.rb, line 37 def self.inserts_overlap?(a,b) ! (a.position.to_a & b.position.to_a).empty? end
sequence_errors(sequence)
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# File lib/scaffolder/tool/validate.rb, line 41 def self.sequence_errors(sequence) sequence.inserts.inject(Array.new) do |errors,a| sequence.inserts.each do |b| next if a.equal?(b) errors << [a,b].sort if inserts_overlap?(a,b) end errors end.uniq end
Public Instance Methods
errors()
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# File lib/scaffolder/tool/validate.rb, line 32 def errors sequences = scaffold.select{|i| i.entry_type == :sequence} sequences.reject{|i| self.class.sequence_errors(i).empty? } end
execute()
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# File lib/scaffolder/tool/validate.rb, line 11 def execute bad_sequences = errors return if bad_sequences.empty? output = bad_sequences.inject(Array.new) do |array, sequence| self.class.sequence_errors(sequence).each do |overlaps| array << {'sequence-insert-overlap' => { 'source' => sequence.source, 'inserts' => overlaps.map do |overlap| {'open' => overlap.open, 'close' => overlap.close, 'source' => overlap.source} end }} end array end YAML.dump(output) end