protein_summary.rb in mspire-0.3.0

- old
+ new

@@ -3,11 +3,11 @@
 require 'axml'
 require 'hash_by'
 require 'optparse'
 require 'ostruct'
 require 'spec_id'
-require 'spec_id/precision'
+#require 'spec_id/precision'  # gone now
 require 'gi'
 
 #############################################################
 # GLOBALS:
 PRECISION_PROGRAM_BASE = 'precision'
@@ -426,10 +426,10 @@
       op.separator ""
       op.separator "Options for #{PRECISION_PROGRAM_BASE}.rb :"
       op.on("--#{PRECISION_PROGRAM_BASE}", "include output of #{PRECISION_PROGRAM_BASE}.rb,") {|v| opt.precision = v}
       op.separator("                                     type '#{PRECISION_PROGRAM_BASE}.rb' for details")
       op.separator ""
-      op.separator "Specific to ProteinProphet (with no concatenated DB):"
+      op.separator "MSific to ProteinProphet (with no concatenated DB):"
       op.on("-c", "--cutoff percent", "false positive predictive rate (FPPR)% for given cutoff") {|v| opt.c = v }
       op.on("--cut_at percent", "only reports proteins within FPPR %") {|v| opt.cut_at = v }
       op.on("--get_annotation", "retrieves annotation by gi code") {|v| opt.get_annotation = v}
       op.separator "             (use if your proteins have gi's but no annotation) "
     end