predict-germline-model-Nonly.production.chenWindows.kmerSizes.trainSets.sh

#!/bin/bash
#SBATCH --time=40:00:00
#SBATCH --account=quinlan-rw
#SBATCH --partition=quinlan-shared-rw
#SBATCH --output=/scratch/ucgd/lustre-work/quinlan/data-shared/constraint-tools/genome-wide-predictions/predict-germline-model-Nonly.production.chenWindows.kmerSizes.trainSets.log

set -o errexit
set -o pipefail
set -o nounset

source set-environment-variables.sh 

# for kmer_size in "1" "3" "5" "7"; do 
for kmer_size in "5"; do 
  # for train_set_label in "noncoding" "coding" "chenWindows"; do
  for train_set_label in "noncoding"; do
    # for noisy_label in ".noisified" ""; do
    for noisy_label in ".noisified"; do
      log_file="${CONSTRAINT_TOOLS_DATA}/genome-wide-predictions/predict-germline-grch38-Nonly.chenWindows.kmerSize-${kmer_size}.trainSet-${train_set_label}${noisy_label}.log"
      job_name="predict-germline-model-Nonly.production.chenWindows.kmerSize-${kmer_size}.trainSet-${train_set_label}${noisy_label}"
      sbatch \
        --wait \
        --output=${log_file} \
        --job-name=${job_name} \
        predict-germline-model-Nonly.production.chenWindows.kmerSize.trainSet.sh \
          --kmer-size ${kmer_size} \
          --train-set-label ${train_set_label} \
          --noisy-label ${noisy_label}
    done
  done
done