Olamide Isreal
a3ffec6a07
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39 lines
1.8 KiB
Bash
39 lines
1.8 KiB
Bash
#!/bin/bash -l
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######################### Batch Headers #########################
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#SBATCH --partition general # NOTE: use reserved partition `chengji-lab-gpu` to use reserved A100 or H100 GPUs
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#SBATCH --account chengji-lab # NOTE: this must be specified to use the reserved partition above
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#SBATCH --nodes=1 # NOTE: this needs to match Lightning's `Trainer(num_nodes=...)`
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#SBATCH --ntasks-per-node=1 # NOTE: this needs to be `1` on SLURM clusters when using Lightning's `ddp_spawn` strategy`; otherwise, set to match Lightning's quantity of `Trainer(devices=...)`
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#SBATCH --mem=59G # NOTE: use `--mem=0` to request all memory "available" on the assigned node
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#SBATCH -t 0-02:00:00 # time limit for the job (up to 2 days: `2-00:00:00`)
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#SBATCH -J plinder_download # job name
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#SBATCH --output=R-%x.%j.out # output log file
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#SBATCH --error=R-%x.%j.err # error log file
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module purge
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module load cuda/11.8.0_gcc_9.5.0
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# determine location of the project directory
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use_private_project_dir=false # NOTE: customize as needed
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if [ "$use_private_project_dir" = true ]; then
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project_dir="/home/acmwhb/data/Repositories/Lab_Repositories/FlowDock"
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else
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project_dir="/cluster/pixstor/chengji-lab/acmwhb/Repositories/Lab_Repositories/FlowDock"
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fi
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# shellcheck source=/dev/null
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source /cluster/pixstor/chengji-lab/acmwhb/miniforge3/etc/profile.d/conda.sh
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conda activate "$project_dir"/FlowDock/
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# Reference Conda system libraries
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export LD_LIBRARY_PATH="$CONDA_PREFIX/lib:$LD_LIBRARY_PATH"
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# determine location of PLINDER dataset
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export PLINDER_MOUNT="$project_dir/data/PLINDER" # NOTE: customize as needed
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mkdir -p "$PLINDER_MOUNT" # create the directory if it doesn't exist
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echo "Downloading PLINDER to $PLINDER_MOUNT!"
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cd "$project_dir" || exit
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plinder_download -y
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echo "Finished downloading PLINDER to $PLINDER_MOUNT!"
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