From 9c26a6e49c7776b3d578bfb8541c7ebd61cf9814 Mon Sep 17 00:00:00 2001
From: Olamide Isreal <olamide@omicmd.com>
Date: Fri, 27 Mar 2026 10:15:13 +0100
Subject: [PATCH] Debug PVC: check mounts and dir contents

---
 debug_pvc.nf | 24 +++++++++++-------------
 1 file changed, 11 insertions(+), 13 deletions(-)

diff --git a/debug_pvc.nf b/debug_pvc.nf
index a2adbdd..059187c 100644
--- a/debug_pvc.nf
+++ b/debug_pvc.nf
@@ -3,20 +3,18 @@ process DEBUG {
     container 'harbor.cluster.omic.ai/omic/digital-patients/synthea:cudf'
     script:
     """
-    echo "PWD: \$(pwd)"
-    echo "=== /omic/eureka/ ==="
+    echo "MOUNT_CHECK"
+    mount | grep omic || echo "no omic mounts"
+    echo "---"
+    ls /omic/ 2>&1
+    echo "---"
     ls /omic/eureka/ 2>&1 | head -20
-    echo "=== /omic/eureka/digital-patients/ ==="
-    ls -la /omic/eureka/digital-patients/ 2>&1 | head -30
-    echo "=== /omic/eureka/digital-patients/imputed/ ==="
-    ls -la /omic/eureka/digital-patients/imputed/ 2>&1 | head -20
-    echo "=== /omic/eureka/digital-patients/healthy/ ==="
-    ls -la /omic/eureka/digital-patients/healthy/ 2>&1 | head -20
-    echo "=== /omic/eureka/digital-patients/supporting-data/ ==="
-    ls -laR /omic/eureka/digital-patients/supporting-data/ 2>&1 | head -30
-    echo "=== Test write ==="
-    echo "test" > /omic/eureka/digital-patients/write_test.txt && echo "WRITE OK" || echo "WRITE FAILED"
-    echo "DONE"
+    echo "---"
+    ls /omic/eureka/digital-patients/ 2>&1 | head -20
+    echo "---"
+    echo "WRITE_TEST"
+    mkdir -p /omic/eureka/digital-patients/test_dir 2>&1 && echo "MKDIR_OK" || echo "MKDIR_FAIL"
+    echo "END"
     """
 }
 workflow { DEBUG() }