Workflow: forome_vcf_upload_archive.cwl
Fetched 2024-05-09 03:06:22 GMT
Verified with cwltool version 3.1.20221201130942
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
Unknown workflow license, check
source repository.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| login | String | ||
| ocPod | String | ||
| archive | File | ||
| ocToken | String | ||
| ocServer | String | ||
| password | String | ||
| case_name | String | ||
| ocProject | String | ||
| access_key | String | ||
| secret_key | String | ||
| bucket_name | String | ||
| region_name | String | ||
| case_assembly | Integer | ||
| output_format | String |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| step1_extract_case |
forome_tar_extract.cwl
(CommandLineTool)
|
||
| step4_archive_case |
forome_tar_archive.cwl
(CommandLineTool)
|
||
| step2_vep_annotation |
forome_vep.cwl
(CommandLineTool)
|
||
| step3_java_annotation |
forome_java_annotation.cwl
(CommandLineTool)
|
||
| step5_upload_to_bucket |
forome_aws_copy.cwl
(CommandLineTool)
|
||
| step6_upload_to_anfisa |
forome_openshift.cwl
(CommandLineTool)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| log_cfg | File | ||
| log_dir | Directory | ||
| log_fam | File | ||
| log_vcf | File | ||
| log_vep | File | ||
| log_archive | File | ||
| log_java_annotation | File | ||
| log_upload_to_anfisa | File | ||
| log_upload_to_bucket | File |
Permalink:
https://w3id.org/cwl/view/git/30114fc1643733f5a3cc8ca6ee956e33290c6022/forome_vcf_upload_archive.cwl
