diff --git a/tools/fragpipe/macros.xml b/tools/fragpipe/macros.xml
index a44b3ed2f..c1fb8b9e1 100644
--- a/tools/fragpipe/macros.xml
+++ b/tools/fragpipe/macros.xml
@@ -20,11 +20,11 @@
       name, experiment, bioreplicate, data type
     -->
     <xml name="samples">
-        <param name="inputs" type="data" format="mzML,mzXML,Thermo.raw" multiple="true" label="Proteomics Spectrum files"  help="All input scan files must of a matching format: mzML, mzXML, or Thermo.raw"/>
+        <param name="inputs" type="data" format="mzML,mzXML" multiple="true" label="Proteomics Spectrum files"  help="All input scan files must of a matching format: mzML, mzXML"/>
         <param name="input_prefix" type="text" value="" optional="true" label="File name prefix" help="Names inputs: prefix_rep#.mzXML Leave blank to use History names of inputs">
               <validator type="regex" message="">[a-zA-Z][a-zA-Z0-9_-]*</validator>
         </param>
-        <param name="manifest" type="data" format="tabular" label="Manifest file" help="TSV file with entries for each input scan file: Name (name of input Galaxy history item), Experiment (empty, alphanumeric, or _), Bioreplicate (empty or integer), Data type (DDA, DIA, GPF-DIA, DIA-Quant, or DIA-lib)"/>
+        <param name="manifest" type="data" format="tabular" label="Manifest file" help="TSV file with entries for each input scan file: Name (Name of input Galaxy history item. Extension in the name must be mzML or mzXML.), Experiment (empty, alphanumeric, or _), Bioreplicate (empty or integer), Data type (DDA, DIA, GPF-DIA, DIA-Quant, or DIA-lib)"/>
     </xml>
 
     <!--