research-rainfallradar/aimodel/slurm-pretrain-predict.job

#!/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