From b4165a58147752500763c772e65565cd3d2f00a6 Mon Sep 17 00:00:00 2001
From: RobertoDF <roberto.defilippo@outlook.com>
Date: Thu, 15 Oct 2020 20:25:15 +0200
Subject: [PATCH 1/2] Issue 44#

---
 SHARP-Track/Display_Probe_Track.m | 15 ++++++++++++++-
 1 file changed, 14 insertions(+), 1 deletion(-)

diff --git a/SHARP-Track/Display_Probe_Track.m b/SHARP-Track/Display_Probe_Track.m
index 7fc4189..234d26a 100644
--- a/SHARP-Track/Display_Probe_Track.m
+++ b/SHARP-Track/Display_Probe_Track.m
@@ -156,7 +156,20 @@
 out_of_brain = false;
 while ~(ann==1 && out_of_brain) % && distance_stepped > .5*active_probe_length)
     m = m-p; % step 10um, backwards up the track
-    ann = av_plot(round(m(1)),round(m(2)),round(m(3))); %until hitting the top
+    
+    if strcmp(plane,'coronal')
+        ann = av_plot(round(m(1)),round(m(2)),round(m(3))); %until hitting the top
+
+    elseif strcmp(plane,'sagittal')
+        ann = av_plot(round(m(3)),round(m(2)),round(m(1))); %until hitting the top
+
+    elseif strcmp(plane,'transverse')
+        ann = av_plot(round(m(2)),round(m(3)),round(m(1))); %until hitting the top
+
+    end
+       
+
+
     if strcmp(st.safe_name(ann), 'root')
         % make sure this isn't just a 'root' area within the brain
         m_further_up = m - p*20; % is there more brain 200 microns up along the track?

From 66720c0d1f33a182fc2a45d31dafebf2e0569adc Mon Sep 17 00:00:00 2001
From: pshamash <philshams@ucla.edu>
Date: Fri, 18 Dec 2020 18:33:29 +0000
Subject: [PATCH 2/2] Update Display_Probe_Track.m

---
 SHARP-Track/Display_Probe_Track.m | 7 -------
 1 file changed, 7 deletions(-)

diff --git a/SHARP-Track/Display_Probe_Track.m b/SHARP-Track/Display_Probe_Track.m
index 234d26a..0cf97a8 100644
--- a/SHARP-Track/Display_Probe_Track.m
+++ b/SHARP-Track/Display_Probe_Track.m
@@ -156,20 +156,13 @@
 out_of_brain = false;
 while ~(ann==1 && out_of_brain) % && distance_stepped > .5*active_probe_length)
     m = m-p; % step 10um, backwards up the track
-    
     if strcmp(plane,'coronal')
         ann = av_plot(round(m(1)),round(m(2)),round(m(3))); %until hitting the top
-
     elseif strcmp(plane,'sagittal')
         ann = av_plot(round(m(3)),round(m(2)),round(m(1))); %until hitting the top
-
     elseif strcmp(plane,'transverse')
         ann = av_plot(round(m(2)),round(m(3)),round(m(1))); %until hitting the top
-
     end
-       
-
-
     if strcmp(st.safe_name(ann), 'root')
         % make sure this isn't just a 'root' area within the brain
         m_further_up = m - p*20; % is there more brain 200 microns up along the track?