• Edit
• Add
• Remove

Firstname

Lastname

ORCID iD 0000-0000-00000-0000 Not associated with ORCID Associate Disassociate

Username

Email

Member Since

Website

Affiliation

Public Information

Change Password

Old Password

New Password

Confirm Password

Access Token

Manage your access tokens

Access Token
Delete Renew Create

Execution Environment

Manage your execution environments

Name	Parameters
		add	remove

User Metrics

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Upon pressing the "Download" button on a workflow, you can choose to download a BASH script or a JSON representation of the workflow.

• BASH script: The BASH script is a directly executable file. Assuming the BASH script filename is bash_7Lt2o.sh and you are in a BASH shell you can type:
  bash script_7Lt2o.sh
  This will execute the workflow.
• JSON: This method will download a file workflow.json that contains all the information required to execute the workflow in a local environment. In order to execute it, you need to convert this file into an executable BASH script. To do this, you need to download the file executor.py. This file requires python 3 and has no other dependencies. After you have downloaded this file, you can run the command:
  python executor.py -W workflow.json
  This will generate the file: script.sh that you can execute as described above.

Both methods will print some information regarding the attempted execution:
Workflow Name: myworkflow Edit: 1 Report: 7Lt2o
This information contains the name (i.e. myworkflow), edit (i.e. 1) and the id of the generated Report (i.e. 7Lt2o). During the execution, the script attempts to inform the server (openbio.eu) on the execution status. To access this information simply search for the Report id (i.e. 7Lt2o) on the main search. Then you can click the relevant report that appears.
Important: If you have downloaded these files as an unregistered user. The execution will not generate a report.
Troubleshooting: In environments where curl cannot validate the SSL certificate of openbio.eu, you can pass the option --insecure to executor.py