terminateJobs.zsh

#!/bin/zsh
# The script will iterate through the queues and terminate any jobs in these queues with any of the following states:
# SUBMITTED PENDING RUNNABLE STARTING RUNNING
# Requirements:
#   valid ~/.aws/credentials
#   aws cli installed
# Usage:
#   pass space-delimited quoted string of queue names as argument to script, e.g.,
#   terminateJobs.zsh "my-nextflow-head-queue my-nextflow-small-process-queue my-nf-large-process-queue"
# 

queues=($1)
for queue in ${=queues}
do
    for state in SUBMITTED PENDING RUNNABLE STARTING RUNNING
    do 
        for job in $(aws batch list-jobs --job-queue $queue --job-status $state --output text --query 'jobSummaryList[*].[jobId]')
        do 
            echo -ne "Stopping job $job in state $state\t"
            aws batch terminate-job --reason "Terminating job." --job-id $job && echo "Done." || echo "Failed."
        done
    done
done