Wdl Python Packages

miniwdl

Workflow Description Language developer tools & local runner

pytest-workflow

Configure workflow/pipeline tests using yaml files.

toil

A WDL, CWL and Python API supporting easy-to-use workflow engine. It is scalable, efficient and cross-platform (Linux/macOS).

tibanna

Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integration Center) to process data. Tibanna supports CWL/WDL (w/ docker), Snakemake (w/ conda) and custom Docker/shell command.

wdl-aid

Automatic Input Documentation for WDL workflows

janis-pipelines

[Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows

wdl-lsp

Rich IDE support for Workflow Description Language

wdldoc

Create WDL documentation using Markdown.

cromshell

Command Line Interface (CLI) for Cromwell servers

cromtool

Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

methseq

Automation tool for high-throughput sequencing DNA methylation data

cromshell-draft-release

CLI for interacting with Cromwell servers

toil-msk

A WDL, CWL and Python API supporting easy-to-use workflow engine. It is scalable, efficient and cross-platform (Linux/macOS).

wdl2cwl

[Experimental] Workflow Definition Language (WDL) to CWL

sprocket-py

Python bindings for sprocket, a bioinformatics toolkit for Workflow Description Language (WDL).

toil-cwl-runner

A WDL, CWL and Python API supporting easy-to-use workflow engine. It is scalable, efficient and cross-platform (Linux/macOS).

wdl-viewer

A web-based visualization tool to view (inter and inner) dependencies of WDL workflows.