In case you are using an AWS provided environment you do not need to clean up, as this environment is cleaned up for you.
Please make sure you are not just copy&paste the commands below. Some commands are removing all available resources - so please make sure you only remove what you want to be removed!
We are going to remove all S3 buckets which match the name nextflow-spot-batch
for b in $(aws s3 ls |awk '/nextflow-spot-batch/{print $3}' |xargs); do echo "# aws s3 rb --force s3://$b" ; aws s3 rb --force s3://$b ;doneWe are going to remove the two images used: nextflow-rna-seq & nextflow-head
for x in nextflow-rna-seq nextflow-head;do echo "# aws ecr --region=${AWS_REGION} delete-repository --force --repository-name=$x" ; aws ecr --region=${AWS_REGION} delete-repository --force --repository-name=$x;doneWe will deregister (remove) the job definitions within AWS Batch. You need to press any key to confirm the removal. Use STRG+C to get out.
for jd in $(aws batch --region=${AWS_REGION} describe-job-definitions |jq -r '.jobDefinitions[] | .jobDefinitionArn' |xargs); do echo "# aws batch --region=${AWS_REGION} deregister-job-definition --job-definition=${jd}" ; echo "-> (remove? press any key)" ; read ; aws batch --region=${AWS_REGION} deregister-job-definition --job-definition=${jd}; doneDisable first…
for jq in $(aws batch --region=${AWS_REGION} describe-job-queues |jq -r '.jobQueues[] |.jobQueueName' |xargs);do echo "# aws batch --region=${AWS_REGION} update-job-queue --state=DISABLED --job-queue=${jq}" ; echo "-> (DISABLE? press any key)" ;read; aws batch --region=${AWS_REGION} update-job-queue --state=DISABLED --job-queue=${jq};doneAfter this went through, delete the queue. If you did not disable them first, they won’t be removed - thus, we skip the confirmation step.
for jq in $(aws batch --region=${AWS_REGION} describe-job-queues |jq -r '.jobQueues[] |.jobQueueName' |xargs);do echo "# aws batch --region=${AWS_REGION} delete-job-queue --job-queue=${jq}" ; aws batch --region=${AWS_REGION} delete-job-queue --job-queue=${jq};doneDisable first… You need to press any key to confirm the removal. Use STRG+C to get out.
for ce in $(aws batch --region=${AWS_REGION} describe-compute-environments |jq -r '.computeEnvironments[] |.computeEnvironmentName' |xargs);do echo "# aws batch --region=${AWS_REGION} update-compute-environment --state=DISABLED --compute-environment=${ce}" ; echo "-> (DISABLE? press any key)" ; read ; aws batch --region=${AWS_REGION} update-compute-environment --state=DISABLED --compute-environment=${ce} ;done…and delete once the state had changed. If you did not disable them first, they won’t be removed - thus, we skip the confirmation step.
for ce in $(aws batch --region=${AWS_REGION} describe-compute-environments |jq -r '.computeEnvironments[] |.computeEnvironmentName' |xargs);do echo "# aws batch --region=${AWS_REGION} delete-compute-environment --compute-environment=${ce}" ; aws batch --region=${AWS_REGION} delete-compute-environment --compute-environment=${ce} ;doneFinnaly, go to the Cloud9 Dashboard and delete your environment.