From 8dcc068505affbc51660e4eeb44e0595c4b5e399 Mon Sep 17 00:00:00 2001
From: Xuan Gu <xuan.gu@liu.se>
Date: Thu, 28 Sep 2023 10:30:47 +0000
Subject: [PATCH] Update file run_benchmark_single_node.sh
---
PyTorch/Segmentation/nnUNet/run_benchmark_single_node.sh | 7 ++-----
1 file changed, 2 insertions(+), 5 deletions(-)
diff --git a/PyTorch/Segmentation/nnUNet/run_benchmark_single_node.sh b/PyTorch/Segmentation/nnUNet/run_benchmark_single_node.sh
index 95071f9..907151e 100644
--- a/PyTorch/Segmentation/nnUNet/run_benchmark_single_node.sh
+++ b/PyTorch/Segmentation/nnUNet/run_benchmark_single_node.sh
@@ -23,11 +23,8 @@ MODULE_VERSION=21.11.0
WORK_DIR=/proj/nsc_testing/xuan/berzelius-benchmarks/PyTorch/Segmentation/nnUNet
CONTAINER_DIR=/proj/nsc_testing/xuan/containers/${MODULE_NAME}_${MODULE_VERSION}.sif
-cd $WORK_DIR
-
-rm -f results/$LOG_DIR
-srun apptainer exec --nv -B ${PWD}/data:/data -B ${PWD}/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'"
-
+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'
EOT
--
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