Batch Execution of R Programs on 'Kubernetes', 'SLURM', and
'Posit Workbench'
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Documentation for package ‘abba’ version 0.2.0
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| abba_get_batch_log | Send GET request to get logs of all jobs in a batch |
| abba_get_batch_status | Send GET request to get batch job statuses |
| abba_get_job_log | Send GET request to get logs of specified Jobs |
| abba_get_job_status | Send GET request to get job status |
| abba_get_k8s_batch_log_local | Return list of logs for jobs that are marked with a given batch ID |
| abba_get_k8s_batch_status_local | Get status of all jobs in a batch |
| abba_get_k8s_job_log_local | Get log for every job specified in an input vector/list |
| abba_get_k8s_job_status_local | Get status of all pods that belong to a job |
| abba_rslauncher_get_job_status_local | Get Workbench job status for a given vector/list of job IDs |
| abba_rslauncher_get_job_succeeded_local | Check whether Workbench jobs have been fully executed. |
| abba_rslauncher_submit_job_local | Create a job for executing an R program |
| abba_rslauncher_submit_logrx_job_local | Execute programs via logrx |
| abba_rslauncher_watch_job_local | Periodically poll Workbench jobs for status and return their IDs when all job statuses arrive at 'Finished' state |
| abba_slurm_get_job_log | Return job log for each submitted job ID |
| abba_slurm_get_job_status | Return descriptive job status for slurm jobs |
| abba_slurm_get_job_succeeded | Check whether SLURM jobs have been fully executed. |
| abba_slurm_submit_job | Submit R program as a SLURM job |
| abba_slurm_watch_job | Watch SLURM job, periodically polling its execution status. |
| abba_submit_and_get_log | Send job and poll for status. This function sends multiple requests so it won't time out on heavy jobs |
| abba_submit_batch | Submit programs for execution in order defined by structure of input list. Programs inside sublists will be executed in parallel, and sublists themselves would be submitted sequentially. |
| abba_submit_batch_and_get_results | Submit programs for execution in order defined by structure of input list. |
| abba_submit_job | Send POST request to submit-job endpoint |
| abba_submit_k8s_job_and_poll_local | Submit a job profile for execution on a Kubernetes cluster and poll for completion |
| abba_submit_k8s_job_local | Submit an R program for execution on a Kubernetes cluster |
| abba_wait_for_batch_log | Monitor batch status and retrieve its log when the all jobs in batch finish running |
| abba_wait_for_job_log | Monitor job status and retrieve its log when the job finishes running |
| abba_watch_k8s_batch_local | Watch a K8S batch that has been submitted to Workbench, periodically polling it's execution status. |
| abba_watch_k8s_job_local | Watch a K8S job that has been submitted to Workbench, periodically polling it's execution status. |
| calculate_run_group | Calculate run_group variable using inputs and outputs of programs supplied by user |
| create_batch_api | Create a Batch API or Job file template |
| create_batch_job | Create a Batch API or Job file template |
| submit_k8s_yaml | Submit a job profile for execution on a Kubernetes cluster |