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dataGeneration.sh
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dataGeneration.sh
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#!/bin/bash
# Bash script to run the data generation on the server
while getopts ":c:G:r:S:f:N:T:" opt;
do
case $opt in
c) COND="$OPTARG"
;;
G) GENES="$OPTARG"
;;
T) TF="$OPTARG"
;;
r) REP="$OPTARG"
;;
S) SIGMA="$OPTARG"
;;
f) FRAC="$OPTARG"
;;
N) FRACNOISE="$OPTARG"
;;
\?) echo "Invalid option -$OPTARG" >&2
;;
esac
done
R2METHOD=mean_V_mean_M
## add data and data/stats/ folders if not existent
if [! -d data/stats/]; then
mkdir -p data/stats/
fi
FILENAME=data/stats/output_dataGeneration_C_${COND}_G_${GENES}_TF_${TF}_rep_${REP}_Sigma_${SIGMA}_FracNoise_${FRACNOISE}_Rsquared_${R2METHOD}_FRAC_${FRAC}.txt
echo Fit generated data with
echo ${COND} conditions,
echo ${GENES} genes,
echo ${TF} TFs,
echo ${REP} repititions and
echo Sigma of the form ${SIGMA} with
echo ${FRAC}% variation explained.
echo ${FRACNOISE}% variation in noise.
# python command:
time -p python generate_data.py -c ${COND} -G ${GENES} -T ${TF} -r ${REP} -S ${SIGMA} -R ${R2METHOD} -f ${FRAC} --fN ${FRACNOISE} |&tee -a ${FILENAME}