Update benchmark_nnunet_pytorch_berzelius.sh

benchmark_nnunet_pytorch_berzelius.sh

+#!/bin/bash
+
+#SBATCH -A nsc
+#SBATCH --nodes=1
+#SBATCH --gres=gpu:8
+#SBATCH --ntasks-per-node=8
+#SBATCH --time=0-01:00:00
+#SBATCH --reservation=your-reservation
+#SBATCH -o benchmark.out
+
 dim=2
 nodes=1
 
@@ -9,12 +19,12 @@ for gpus in 1 2 3 4 5 6 7 8; do
 
             echo dim $dim, nodes $nodes, gpus $gpus, batch_size $batch_size, tf32, iteration $iteration
             rm -f results/benchmark_dim${dim}_nodes${nodes}_gpus${gpus}_batchsize${batch_size}_tf32_iteration${iteration}.json
-            python scripts/benchmark.py --mode train --gpus $gpus --dim $dim --batch_size $batch_size --nodes $nodes --logname="benchmark_dim${dim}_nodes${nodes}_gpus${gpus}_batchsize${batch_size}_tf32_iteration${iteration}.json"
-
+            singularity exec --nv -B ${PWD}/data:/data -B ${PWD}/results:/results nvidia_nnu-net_for_pytorch.sif python scripts/benchmark.py --mode train --gpus $gpus --dim $dim --batch_size $batch_size --nodes $nodes --logname="benchmark_dim${dim}_nodes${nodes}_gpus${gpus}_batchsize${batch_size}_tf32_iteration${iteration}.json"
+            
             echo dim $dim, nodes $nodes, gpus $gpus, batch_size $batch_size, amp, iteration $iteration
             rm -f results/benchmark_dim${dim}_nodes${nodes}_gpus${gpus}_batchsize${batch_size}_amp_iteration${iteration}.json
-            python scripts/benchmark.py --mode train --gpus $gpus --dim $dim --batch_size $batch_size --nodes $nodes --amp --logname="benchmark_dim${dim}_nodes${nodes}_gpus${gpus}_batchsize${batch_size}_amp_iteration${iteration}.json"
-
+            singularity exec --nv -B ${PWD}/data:/data -B ${PWD}/results:/results nvidia_nnu-net_for_pytorch.sif python scripts/benchmark.py --mode train --gpus $gpus --dim $dim --batch_size $batch_size --nodes $nodes --amp --logname="benchmark_dim${dim}_nodes${nodes}_gpus${gpus}_batchsize${batch_size}_amp_iteration${iteration}.json"
+        
         done
         
     done