From c436ca35e8e0e6a2fc43fc19c9368ce02e36e362 Mon Sep 17 00:00:00 2001
From: Sharon Yates <30626642+sharoncy@users.noreply.github.com>
Date: Mon, 18 Mar 2024 11:33:11 +0100
Subject: [PATCH] Update README.md

---
 README.md | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/README.md b/README.md
index db52fa8..eaaa78b 100644
--- a/README.md
+++ b/README.md
@@ -5,7 +5,8 @@ For more information about the QUINT workflow:
 https://quint-workflow.readthedocs.io/en/latest/ 
 
 # Usage
-Run testOOP.py outside of the PyNutil directory.
+Fill in the test.json with the path to the required input files. e.g. path to reference atlas volume, atlas label file, segmentations (from ilastik), alignment json (from QuickNII or VisuAlign)
+Then Run testOOP.py outside of the PyNutil directory to inititate the job. 
 
 ```
 from PyNutil import PyNutil
-- 
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