- puts()
- puts( "hmmpfam outputfile : " + inpath )
- puts( "outputfile : " + outpath )
- if ( i_e_value_threshold >= 0.0 )
- puts( "i-E-value threshold : " + i_e_value_threshold.to_s )
- else
- puts( "i-E-value threshold : no threshold" )
- end
- if ( parse_descriptions )
- puts( "parse descriptions : true" )
- else
- puts( "parse descriptions : false" )
- end
- if ( ignore_dufs )
- puts( "ignore DUFs : true" )
- else
- puts( "ignore DUFs : false" )
- end
- if ( column_delimiter == "\t" )
- puts( "column delimiter : TAB" )
- else
- puts( "column delimiter : " + column_delimiter )
- end
- if fs_e_value_threshold >= 0.0
- puts( "E-value threshold : " + fs_e_value_threshold.to_s )
- else
- puts( "E-value threshold : no threshold" )
- end
- if !hmm_for_protein_output.empty?
- puts( "HMM for proteins : " + hmm_for_protein_output )
- end
- if !uniprot.empty?
- puts( "Uniprot : " + uniprot )
- end
- puts()
+# puts()
+# puts( "hmmpfam outputfile : " + inpath )
+# puts( "outputfile : " + outpath )
+# puts( "species : " + species )
+# if ( i_e_value_threshold >= 0.0 )
+# puts( "i-E-value threshold : " + i_e_value_threshold.to_s )
+# else
+# puts( "i-E-value threshold : no threshold" )
+# end
+# if ( parse_descriptions )
+# puts( "parse descriptions : true" )
+# else
+# puts( "parse descriptions : false" )
+# end
+# if ( ignore_dufs )
+# puts( "ignore DUFs : true" )
+# else
+# puts( "ignore DUFs : false" )
+# end
+# if ( column_delimiter == "\t" )
+# puts( "column delimiter : TAB" )
+# else
+# puts( "column delimiter : " + column_delimiter )
+# end
+# if fs_e_value_threshold >= 0.0
+# puts( "E-value threshold : " + fs_e_value_threshold.to_s )
+# else
+# puts( "E-value threshold : no threshold" )
+# end
+# if !hmm_for_protein_output.empty?
+# puts( "HMM for proteins : " + hmm_for_protein_output )
+# end
+# if !uniprot.empty?
+# puts( "Uniprot : " + uniprot )
+# end
+# puts()