Supports the submission of a fully defined workflow job to a Cromwell instance.
Usage
cromwell_submit_batch(
wdl,
batch = NULL,
params = NULL,
options = NULL,
labels = NULL,
dependencies = NULL,
url = cw_url(),
token = NULL
)Arguments
- wdl
Local path to the wdl file describing the workflow. (Required)
- batch
Local path to the json containing a reference to any batch file desired if the workflow is a batch. (Optional)
- params
Local path to the json containing the parameters to use with the workflow. (Optional)
- options
Local path to the json containing workflow options to apply. (Optional)
- labels
A data frame containing the labels for this workflow. (Optional)
- dependencies
A zip'd file of subworkflow dependencies. (Optional)
- url
(character) base url for your Cromwell server. optional. if not supplied set the url as the env var
CROMWELLURL- token
(character) we do not recommend passing your token here as a string. Either pass it using
Sys.getenv()or save your token as the env varPROOF_TOKENand then passing nothing to this param and we'll find it
Value
a tibble with one row and two columns:
id: workflow ID you'll need to monitor the job
status: the status of the job
Important
Requires valid Cromwell server URL to be set. See cromwell_settings