From 843317257391d493c60787b7545b8aad58f19dea Mon Sep 17 00:00:00 2001
From: Douglas Greve <greve@nmr.mgh.harvard.edu>
Date: Tue, 14 Apr 2020 10:18:45 -0400
Subject: [PATCH] Now uses ComputeBrainVolumeStats2(). This will change the
 output of recon-all

---
 mri_brainvol_stats/mri_brainvol_stats.cpp | 5 ++++-
 1 file changed, 4 insertions(+), 1 deletion(-)

diff --git a/mri_brainvol_stats/mri_brainvol_stats.cpp b/mri_brainvol_stats/mri_brainvol_stats.cpp
index fa29a6ff506..b60a4600b56 100644
--- a/mri_brainvol_stats/mri_brainvol_stats.cpp
+++ b/mri_brainvol_stats/mri_brainvol_stats.cpp
@@ -29,7 +29,10 @@ int main(int argc, char **argv)
   }
 
   // compute and write the vol stats to a cache file at subjects/stats/brainvol.stats
-  std::vector<double> stats = ComputeBrainVolumeStats(subject, subjdir);
+  int CBVSVersion = 2, KeepCSF = 1;
+  std::vector<double> stats;
+  if(CBVSVersion == 1) stats = ComputeBrainVolumeStats(subject, subjdir);
+  if(CBVSVersion == 2) stats = ComputeBrainVolumeStats2(subject, subjdir, KeepCSF);
   CacheBrainVolumeStats(stats, subject, subjdir);
 
   return 0;