Explore Workflows

An example workflow created using Autosubmit's basic a000 workflow as reference. The `platform.yml` is ignored as it contains only information about platforms (e.g. it could be given to a tool like Troika as-is). `expdef.yml` and `autosubmit.yml` basically provide CWL inputs. `jobs.yml` contains the steps of the CWL workflow, with their dependencies. In CWL dependencies are specified via inputs and outputs. When task A outputs a value X, and task B has an input of type A/X, then the dependency A -> B is created in CWl. This is different than Autosubmit, and needs some care to guarantee the correct order in the workflow graph of start dates, members, chunks, etc.

https://github.com/kinow/kinoshita.eti.br.git

Path: notes/autosubmit/autosubmit.cwl

Branch/Commit ID: master

https://github.com/nlesc-sherlock/deeplearning.git

Path: CWLworkflow/pipeline.cwl

Branch/Commit ID: master

https://github.com/genome/analysis-workflows.git

Path: definitions/pipelines/bisulfite.cwl

Branch/Commit ID: master

https://github.com/ChrisMaherLab/PACT.git

Path: subworkflows/varscan.cwl

Branch/Commit ID: master

https://github.com/NCI-GDC/gdc-dnaseq-cwl.git

Path: workflows/dnaseq/integrity.cwl

Branch/Commit ID: 1.0

https://github.com/ncbi/pgap.git

Path: bacterial_noncoding/wf_bacterial_noncoding.cwl

Branch/Commit ID: test

https://github.com/reanahub/reana-demo-worldpopulation.git

Path: workflow/cwl/worldpopulation.cwl

Branch/Commit ID: master

https://github.com/bcbio/bcbio_validation_workflows.git

Path: somatic-giab-mix/somatic-giab-mix-workflow/main-somatic-giab-mix.cwl

Branch/Commit ID: master

https://github.com/idaks/cwl_modeling.git

Path: yw_cwl_modeling/yw2cwl_parser/example_sql/paleocar_models/wf_paleocar_models.cwl

Branch/Commit ID: master

https://github.com/ncbi/pgap.git

Path: vecscreen/foreign_screening.cwl

Branch/Commit ID: test