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Debug PVC: check mounts and dir contents

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Olamide Isreal
2026-03-27 10:15:13 +01:00
parent 83a79287b2
commit 9c26a6e49c
1 changed files with 11 additions and 13 deletions
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24
debug_pvc.nf
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@@ -3,20 +3,18 @@ process DEBUG {
container 'harbor.cluster.omic.ai/omic/digital-patients/synthea:cudf' container 'harbor.cluster.omic.ai/omic/digital-patients/synthea:cudf'
script: script:
""" """
echo "PWD: \$(pwd)" echo "MOUNT_CHECK"
echo "=== /omic/eureka/ ===" mount | grep omic || echo "no omic mounts"
echo "---"
ls /omic/ 2>&1
echo "---"
ls /omic/eureka/ 2>&1 | head -20 ls /omic/eureka/ 2>&1 | head -20
echo "=== /omic/eureka/digital-patients/ ===" echo "---"
ls -la /omic/eureka/digital-patients/ 2>&1 | head -30 ls /omic/eureka/digital-patients/ 2>&1 | head -20
echo "=== /omic/eureka/digital-patients/imputed/ ===" echo "---"
ls -la /omic/eureka/digital-patients/imputed/ 2>&1 | head -20 echo "WRITE_TEST"
echo "=== /omic/eureka/digital-patients/healthy/ ===" mkdir -p /omic/eureka/digital-patients/test_dir 2>&1 && echo "MKDIR_OK" || echo "MKDIR_FAIL"
ls -la /omic/eureka/digital-patients/healthy/ 2>&1 | head -20 echo "END"
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"
""" """
} }
workflow { DEBUG() } workflow { DEBUG() }