From 0ebf3741e858a564e15d8f9d53421d3a8b4d7300 Mon Sep 17 00:00:00 2001
From: rmmiller22 <30324061+rmmiller22@users.noreply.github.com>
Date: Tue, 29 Jun 2021 09:17:56 -0500
Subject: [PATCH] Revert "quick fix file loading done (#2064)" (#2078)

This reverts commit 2600c707b73c1396f817335167ee2c22b3355378.
---
 TaskLayer/GlycoSearchTask/GlycoSearchTask.cs | 2 --
 TaskLayer/XLSearchTask/XLSearchTask.cs       | 2 +-
 2 files changed, 1 insertion(+), 3 deletions(-)

diff --git a/TaskLayer/GlycoSearchTask/GlycoSearchTask.cs b/TaskLayer/GlycoSearchTask/GlycoSearchTask.cs
index 2dcb8c509..cf4ad4996 100644
--- a/TaskLayer/GlycoSearchTask/GlycoSearchTask.cs
+++ b/TaskLayer/GlycoSearchTask/GlycoSearchTask.cs
@@ -99,8 +99,6 @@ protected override MyTaskResults RunSpecific(string OutputFolder, List<DbForTask
                 Status("Getting ms2 scans...", thisId);
 
                 Ms2ScanWithSpecificMass[] arrayOfMs2ScansSortedByMass = GetMs2Scans(myMsDataFile, origDataFile, combinedParams).OrderBy(b => b.PrecursorMass).ToArray();
-                myFileManager.DoneWithFile(origDataFile);
-
                 List<GlycoSpectralMatch>[] newCsmsPerMS2ScanPerFile = new List<GlycoSpectralMatch>[arrayOfMs2ScansSortedByMass.Length];
 
                 for (int currentPartition = 0; currentPartition < CommonParameters.TotalPartitions; currentPartition++)
diff --git a/TaskLayer/XLSearchTask/XLSearchTask.cs b/TaskLayer/XLSearchTask/XLSearchTask.cs
index 8bdfa14fa..7418e2ab4 100644
--- a/TaskLayer/XLSearchTask/XLSearchTask.cs
+++ b/TaskLayer/XLSearchTask/XLSearchTask.cs
@@ -95,7 +95,7 @@ protected override MyTaskResults RunSpecific(string OutputFolder, List<DbForTask
                 Status("Getting ms2 scans...", thisId);
 
                 Ms2ScanWithSpecificMass[] arrayOfMs2ScansSortedByMass = GetMs2Scans(myMsDataFile, origDataFile, combinedParams).OrderBy(b => b.PrecursorMass).ToArray();
-                myFileManager.DoneWithFile(origDataFile);
+
                 List<CrosslinkSpectralMatch>[] newCsmsPerMS2ScanPerFile = new List<CrosslinkSpectralMatch>[arrayOfMs2ScansSortedByMass.Length];
                 for (int currentPartition = 0; currentPartition < CommonParameters.TotalPartitions; currentPartition++)
                 {