Class: Neurohmmer::ArgumentsValidators

Inherits:
Object
  • Object
show all
Defined in:
lib/neurohmmer/arg_validators.rb

Overview

A class that validates the command line opts

Class Method Summary collapse

Class Method Details

.run(opt) ⇒ Object 



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# File 'lib/neurohmmer/arg_validators.rb', line 8

def run(opt)
  assert_file_present('input fasta file', opt[:input_file])
  assert_input_file_not_empty(opt[:input_file])
  assert_input_file_probably_fasta(opt[:input_file])
  opt[:type] = assert_input_sequence(opt[:input_file])
  export_bin_dirs(opt[:hmmer_bin]) if opt[:hmmer_bin]
  # TODO: Assert hmm & mafft binaries
  opt
end