oicr-gsi / empty

Empty workflow for testing infrastructure

empty

Workflow for testing infrastructure

Overview

Dependencies

Usage

Cromwell

java -jar cromwell.jar run empty.wdl --inputs inputs.json

Inputs

Required workflow parameters:

Parameter	Value	Description
dummyInput	File	Unused input file, strictly for Vidarr regression testing.

Optional workflow parameters:

Parameter	Value	Default	Description
exitCode	Int	0	Exit code
n	Int	10	Number of lines to log to stderr

Optional task parameters:

Parameter	Value	Default	Description
log.mem	Int	1	Memory (in GB) to allocate to the job
log.runtime_seconds	Int	60	The amount of time (in seconds) to simulate processing/sleep for
log.timeout	Int	1	Maximum amount of time (in hours) the task can run for

Outputs

Output	Type	Description	Labels
stdout	File	stdout lines produced	vidarr_label: stdout
stderr	File	stderr lines produced	vidarr_label: stderr

Commands

This section lists command(s) run by "empty" workflow, a workflow used by GSI's infrastructure & Software Development team for testing.

• Workflow "empty" does the following: ** Prints to X lines to stdout and stderr. ** Waits for Y seconds (to simulate long running tasks). ** Exits/terminates with a user specified exit code.

<<< set -euo pipefail # Output n lines to stderr for (( i = 1; i <= ~{n}; i++ )) ; do echo "This is a place holder stdout line ${i}" echo "This is a place holder stderr line ${i}" 1>&2 done sleep ~{runtime_seconds} exit ~{exitCode}

Support

For support, please file an issue on the Github project or send an email to [e-mail] .

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