--- a/macros.xml	Wed Sep 27 08:59:54 2017 -0400
+++ b/macros.xml	Sat Oct 28 04:16:50 2017 -0400
@@ -8,10 +8,10 @@
         </stdio>
     </xml>
     <token name="@GENERAL_PARAMETERS@">
-            -frag_tol "${precursor_options.fragment_tol}"
-            ### -frag_ppm
-            -prec_tol "${precursor_options.precursor_ion_tol}"
-            -prec_ppm "${precursor_options.precursor_ion_tol_units}"
+            -frag_tol '${precursor_options.fragment_tol}'
+            -frag_ppm '${precursor_options.fragment_tol_units}'
+            -prec_tol '${precursor_options.precursor_ion_tol}'
+            -prec_ppm '${precursor_options.precursor_ion_tol_units}'
 
             -min_charge $precursor_options.min_charge
             -max_charge $precursor_options.max_charge
@@ -126,7 +126,12 @@
             </param>
             <param name="precursor_ion_tol" type="float" value="10" label="Precursor Ion Tolerance"
                 help="Provide error value for precursor ion, based on instrument used. 10 ppm recommended for Orbitrap instrument"/>
-            <param name="fragment_tol" type="float" value="0.5" label="Fragment Tolerance (Daltons)"
+            <param name="fragment_tol_units" type="select" label="Fragment Tolerance Units"
+                help="Select based on instrument used, as different machines provide different quality of spectra. ppm is a standard for most precursor ions">
+                <option value="1">Parts per million (ppm)</option>
+                <option value="2">Daltons</option>
+            </param>
+            <param name="fragment_tol" type="float" value="0.5" label="Fragment Tolerance"
                 help="Provide error value for fragment ions, based on instrument used"/>
             <param name="min_charge" label="Minimum Charge" value="2" type="integer" help="Lowest searched charge value for fragment ions"/>
             <param name="max_charge" label="Maximum Charge" value="4" type="integer" help="Highest searched charge value for fragment ions"/>