From ac2438cb7964c587c7cfea78b8ff613ee5f4becc Mon Sep 17 00:00:00 2001
From: Joshua Newton <joshuacwnewton@gmail.com>
Date: Mon, 30 Oct 2023 15:28:53 -0400
Subject: [PATCH] `batch_single_subject.sh`: Add missing `cd` command

---
 single_subject/batch_single_subject.sh | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/single_subject/batch_single_subject.sh b/single_subject/batch_single_subject.sh
index bacd90c..e53aeb5 100755
--- a/single_subject/batch_single_subject.sh
+++ b/single_subject/batch_single_subject.sh
@@ -129,7 +129,7 @@ sct_compute_compression -i t2_compressed_seg.nii.gz -vertfile t2_compressed_seg_
 
 # Registering T2 data to the PAM50 template
 # ======================================================================================================================
-
+cd ../t2
 # Register t2->template.
 sct_register_to_template -i t2.nii.gz -s t2_seg.nii.gz -l t2_labels_vert.nii.gz -c t2 -qc ~/qc_singleSubj
 # Note: By default the PAM50 template is selected. You can also select your own template using flag -t.