Workflow: <YOUR CHALLENGE> Evaluation
Fetched 2025-06-09 05:36:16 GMT
Verified with cwltool version 3.1.20230201224320
BRIEF DESCRIPTION ABOUT THE CHALLENGE, e.g. This workflow will run and evaluate Docker submissions to the Awesome Challenge (syn123). Metrics returned are x, y, z.
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
Apache License 2.0
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| organizers | String | User or team ID for challenge organizers | |
| submissionId | Integer | Submission ID | |
| synapseConfig | File | filepath to .synapseConfig file | |
| adminUploadSynId | String | Synapse Folder ID accessible by an admin | |
| workflowSynapseId | String | Synapse File ID that links to the workflow | |
| submitterUploadSynId | String | Synapse Folder ID accessible by the submitter |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| score |
steps/score.cwl
(CommandLineTool)
|
Score predictions file | |
| validate |
steps/validate.cwl
(CommandLineTool)
|
Validate predictions file | |
| run_docker |
steps/run_docker.cwl
(CommandLineTool)
|
||
| email_score |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/score_email.cwl
(CommandLineTool)
|
||
| check_status |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/check_status.cwl
(ExpressionTool)
|
||
| upload_results |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/upload_to_synapse.cwl
(CommandLineTool)
|
||
| validate_docker |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/validate_docker.cwl
(CommandLineTool)
|
||
| email_validation |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/validate_email.cwl
(CommandLineTool)
|
||
| get_docker_config |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/get_docker_config.cwl
(CommandLineTool)
|
||
| check_docker_status |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/check_status.cwl
(ExpressionTool)
|
||
| get_docker_submission |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/get_submission.cwl
(CommandLineTool)
|
||
| organizers_log_access |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v4.1/cwl/set_permissions.cwl
(CommandLineTool)
|
Set Synapse permissions |
Set the permission level for the given Synapse entity; a common use case would be to give the submitter `download` permissions to their log files (by default, only the creator, aka the infrastructure person, has access). |
| email_docker_validation |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/validate_email.cwl
(CommandLineTool)
|
||
| set_admin_folder_permissions |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/set_permissions.cwl
(CommandLineTool)
|
||
| annotate_docker_upload_results |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/annotate_submission.cwl
(CommandLineTool)
|
||
| annotate_submission_with_output |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/annotate_submission.cwl
(CommandLineTool)
|
||
| annotate_validation_with_output |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/annotate_submission.cwl
(CommandLineTool)
|
||
| set_submitter_folder_permissions |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/set_permissions.cwl
(CommandLineTool)
|
||
| annotate_docker_validation_with_output |
https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/annotate_submission.cwl
(CommandLineTool)
|
Outputs
There are no outputs in this workflow
Permalink:
https://w3id.org/cwl/view/git/b63d819ba763435496e9608d0b5af304360961e9/workflow.cwl
