From 67b461bb2aea874c0152f6e84c7f19a028d4727a Mon Sep 17 00:00:00 2001
From: Xuan Gu <xuan.gu@liu.se>
Date: Thu, 28 Sep 2023 10:32:19 +0000
Subject: [PATCH] Update file run_benchmark_single_node.sh
---
PyTorch/Segmentation/nnUNet/run_benchmark_single_node.sh | 3 ++-
1 file changed, 2 insertions(+), 1 deletion(-)
diff --git a/PyTorch/Segmentation/nnUNet/run_benchmark_single_node.sh b/PyTorch/Segmentation/nnUNet/run_benchmark_single_node.sh
index 907151e..8dfd007 100644
--- a/PyTorch/Segmentation/nnUNet/run_benchmark_single_node.sh
+++ b/PyTorch/Segmentation/nnUNet/run_benchmark_single_node.sh
@@ -24,7 +24,8 @@ WORK_DIR=/proj/nsc_testing/xuan/berzelius-benchmarks/PyTorch/Segmentation/nnUNet
CONTAINER_DIR=/proj/nsc_testing/xuan/containers/${MODULE_NAME}_${MODULE_VERSION}.sif
rm -f $WORK_DIR/results/$LOG_DIR
-srun apptainer exec --nv --pwd /workspace/nnunet_pyt -B ${WORK_DIR}/data:/data -B ${WORK_DIR}/results:/results $CONTAINER_DIR python scripts/benchmark.py --mode train --gpus ${3} --dim ${1} --batch_size ${4} --nodes ${2} --amp --logname='$LOG_DIR'
+srun apptainer exec --nv -B ${WORK_DIR}/data:/data -B ${WORK_DIR}/results:/results $CONTAINER_DIR bash -c "cd /workspace/nnunet_pyt && python scripts/benchmark.py --mode train --gpus ${3} --dim ${1} --batch_size ${4} --nodes ${2} --amp --logname='$LOG_DIR'"
+
EOT
--
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