From 08f70c2545d36cd5e29080ed5eb6884762577980 Mon Sep 17 00:00:00 2001
From: tefirman <tefirman@gmail.com>
Date: Sat, 21 Dec 2024 09:10:48 -0800
Subject: [PATCH] Adjusting nested map task

---
 mapTypeTest/mapTypeTest.wdl | 6 +++++-
 1 file changed, 5 insertions(+), 1 deletion(-)

diff --git a/mapTypeTest/mapTypeTest.wdl b/mapTypeTest/mapTypeTest.wdl
index 6f96bf1..f17ec17 100644
--- a/mapTypeTest/mapTypeTest.wdl
+++ b/mapTypeTest/mapTypeTest.wdl
@@ -93,9 +93,13 @@ task process_nested_map {
         String patient_id
         Map[String, String] patient_data
         Array[String] samples_for_patient
-        String sample_type = patient_data[samples_for_patient[0]]
     }
 
+    # First get the first sample ID
+    String first_sample = samples_for_patient[0]
+    # Then use it to index the patient data
+    String sample_type = patient_data[first_sample]
+
     command {
         echo "Processing patient ${patient_id} with sample type ${sample_type}"
         for sample in ${sep=' ' samples_for_patient}; do