From 2cf37b7d080e1e6e187deda78721b2ef5e6305a0 Mon Sep 17 00:00:00 2001
From: alchemistmatt <matthew.monroe@pnnl.gov>
Date: Fri, 9 Jul 2021 20:51:18 -0700
Subject: [PATCH] Update error message and add comments

---
 LiquidBackend/Util/GlobalWorkflow.cs | 7 ++++++-
 1 file changed, 6 insertions(+), 1 deletion(-)

diff --git a/LiquidBackend/Util/GlobalWorkflow.cs b/LiquidBackend/Util/GlobalWorkflow.cs
index 983cac6..8f3c95e 100644
--- a/LiquidBackend/Util/GlobalWorkflow.cs
+++ b/LiquidBackend/Util/GlobalWorkflow.cs
@@ -316,7 +316,7 @@ public static List<LipidGroupSearchResult> RunGlobalWorkflow(IEnumerable<Lipid>
             var fragScanPairs = GetSortedMsMsScans(lcmsRun);
 
             if (fragScanPairs.Count == 0)
-                throw new SystemException("File has not MS/MS spectra");
+                throw new SystemException("File has no MS/MS spectra");
 
             var scanPairCount = fragScanPairs.Count;
 
@@ -672,6 +672,11 @@ internal static List<ScanPair> GetSortedMsMsScans(LcMsRun lcmsRun)
 
         private class FragmentationScanComparer : IComparer<FragmentationScanInfo>
         {
+            /// <summary>
+            /// Sort by m/z, then place HCD scans before other scans
+            /// </summary>
+            /// <param name="x"></param>
+            /// <param name="y"></param>
             public int Compare(FragmentationScanInfo x, FragmentationScanInfo y)
             {
                 if (x.PrecursorMz > y.PrecursorMz)