class Bio::TMHMM::TmHmmWrapper
Public Instance Methods
calculate(sequence)
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Given an amino acid sequence, return a TransmembraneProtein made up of the predicted transmembrane domains
# File lib/bio/appl/tmhmm/tmhmm_runner.rb, line 8 def calculate(sequence) Bio::Command.mktmpdir do |d| line = nil Bio::Command.call_command(['tmhmm','-short'], :chdir => d) do |io| io.puts '>wrapperSeq' io.puts sequence io.close_write line = io.readline end if line.nil? raise Exception, "Error running locally installed TMHMM program 'tmhmm'. Is it properly installed?" end return TmHmmResult.create_from_short_line(line) end end