mirror of
https://github.com/sbrl/research-rainfallradar
synced 2024-11-04 17:13:02 +00:00
92 lines
No EOL
3.1 KiB
Bash
Executable file
92 lines
No EOL
3.1 KiB
Bash
Executable file
#!/usr/bin/env bash
|
|
#SBATCH -J RainEmbd
|
|
#SBATCH -N 1
|
|
#SBATCH -n 14
|
|
#SBATCH --gres=gpu:1
|
|
#SBATCH -o %j.%N.%a.pretrain-predict.out.log
|
|
#SBATCH -e %j.%N.%a.pretrain-predict.err.log
|
|
#SBATCH -p gpu05,gpu
|
|
#SBATCH --time=5-00:00:00
|
|
|
|
module load utilities/multi
|
|
module load readline/7.0
|
|
module load gcc/10.2.0
|
|
module load cuda/11.5.0
|
|
|
|
module load python/anaconda/4.6/miniconda/3.7
|
|
|
|
|
|
show_help() {
|
|
echo -e "Usage:" >&2;
|
|
echo -e " [INPUT=\"\$HOME/rainfallwater_records_embed.jsonl.gz\"] [POSTFIX=\"some_string\"] sbatch slurm-pretrain-plot.job" >&2;
|
|
echo -e "" >&2;
|
|
echo -e "....where:" >&2;
|
|
echo -e " INPUT The path to the input file (.jsonl.gz) containing the embedded data to plot (see the pretrain-predict subcommand for embedding data)" >&2;
|
|
echo -e " OUTPUT Optional. The filepath/dir to write output to." >&2;
|
|
echo -e " CHECKPOINT The filepath to the checkpoint (.hdf5) file to load" >&2;
|
|
echo -e " POSTFIX Arbitrary string to add to filename." >&2;
|
|
echo -e " ARGS Any additional args to pass to pretrain-plot." >&2;
|
|
echo -e "" >&2;
|
|
echo -e "The code used to identify the run is taken automatically from the filename of the config file." >&2;
|
|
exit;
|
|
}
|
|
|
|
INPUT="${INPUT:-$HOME/rainfallwater_records_tfrecord}";
|
|
CHECKPOINT="${CHECKPOINT:-output/2022-09-07_pretrain_contrast_dim1024/checkpoints/checkpoint_weights_e32_loss0.693.hdf5}"
|
|
|
|
if [[ -z "${INPUT}" ]]; then
|
|
echo -e "Error: No INPUT environment variable specified.\n" >&2;
|
|
show_help;
|
|
exit 0;
|
|
fi
|
|
if [[ -z "${CHECKPOINT}" ]]; then
|
|
echo -e "Error: No CHECKPOINT environment variable specified\n" >&2;
|
|
show_help;
|
|
exit 0;
|
|
fi
|
|
|
|
if [[ ! -d "${INPUT}" ]]; then
|
|
echo -e "Error: The input filepath at '${INPUT}' containing the input .tfrecord dataset either doesn't exist or isn't a directory.";
|
|
show_help;
|
|
exit 1;
|
|
fi
|
|
|
|
|
|
CODE="_contrast_embed_umap";
|
|
|
|
if [[ -n "${POSTFIX}" ]]; then
|
|
echo -e ">>> Applying postfix of ${POSTFIX}" >&2;
|
|
CODE="${CODE}_${POSTFIX}";
|
|
fi
|
|
|
|
|
|
if [[ -n "${OUTPUT}" ]]; then
|
|
filepath_output="${OUTPUT}";
|
|
else
|
|
filepath_output="output/rainfallwater_records_embed_$(date -u --rfc-3339=date)${CODE}.jsonl.gz";
|
|
fi
|
|
|
|
echo -e ">>> Input dirpath: ${INPUT}" >&2;
|
|
echo -e ">>> Output path: ${filepath_output}" >&2;
|
|
echo -e ">>> Postfix: ${POSTFIX}" >&2;
|
|
echo -e ">>> Checkpoint: ${CHECKPOINT}" >&2;
|
|
echo -e ">>> Code: ${CODE}" >&2;
|
|
echo -e ">>> Additional args: ${ARGS}";
|
|
|
|
|
|
|
|
export PATH=$HOME/software/bin:$PATH;
|
|
|
|
echo ">>> Installing requirements";
|
|
conda run -n py38 pip install -r requirements.txt;
|
|
echo ">>> Making predictions";
|
|
#shellcheck disable=SC2086
|
|
echo COMMAND: conda run -n py38 /usr/bin/env time -v src/index.py pretrain-predict --input "${INPUT}" --output "${filepath_output}" -c "${CHECKPOINT}" ${ARGS}
|
|
conda run -n py38 /usr/bin/env time -v src/index.py pretrain-predict --input "${INPUT}" --output "${filepath_output}" -c "${CHECKPOINT}" ${ARGS}
|
|
echo ">>> exited with code $?";
|
|
|
|
if [[ "${filepath_output}" != *.tfrecord* ]]; then
|
|
# dirpath_output="$(dirname "${filepath_output}")";
|
|
INPUT="${filepath_output}" POSTFIX="${POSTFIX}" sbatch slurm-pretrain-plot.job
|
|
echo ">>> No tfrecord output detected, queued UMAP plot"
|
|
fi |