GA4GH Workflow Execution Service reference implementation
Project description
Workflow as a Service
This provides client and server implementations of the GA4GH Workflow Execution Service API for the Common Workflow Language.
It provides an Arvados backend. It also works with any cwl-runner that supports the CWL standard command line interface: http://www.commonwl.org/v1.0/CommandLineTool.html#Executing_CWL_documents_as_scripts
Installation:
pip install wes-service
Run a standalone server with default cwl-runner backend:
$ wes-server
Submit a workflow to run:
$ wes-client --host=localhost:8080 myworkflow.cwl myjob.json
List workflows:
$ wes-client --list
Get workflow status:
$ wes-client --get <workflow-id>
Get stderr log from workflow:
$ wes-client --log <workflow-id>
Server Options
Run a standalone server with Arvados backend:
$ wes-server --backend=wes_service.arvados_wes
Use a different executable with cwl_runner backend
$ wes-server --backend=wes_service.cwl_runner --opt runner=cwltoil
Pass parameters to cwl-runner
$ wes-server --backend=wes_service.cwl_runner --opt extra=--workDir=/
Client environment options
Set service endpoint:
$ export WES_API_HOST=localhost:8080
Set the value to pass in the Authorization header:
$ export WES_API_AUTH=my_api_token
Set the protocol (one of http, https)
$ export WES_API_PROTO=http
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
Built Distributions
File details
Details for the file wes-service-3.1.tar.gz.
File metadata
- Download URL: wes-service-3.1.tar.gz
- Upload date:
- Size: 23.6 kB
- Tags: Source
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/1.11.0 pkginfo/1.4.2 requests/2.21.0 setuptools/40.6.3 requests-toolbelt/0.8.0 tqdm/4.24.0 CPython/3.5.3
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | b301bb4ca54feec0ed2a793fffe708a152893c28bb1bf03257471755fd96f875 |
|
| MD5 | e66f86eb58e1288c2944bdc01337befb |
|
| BLAKE2b-256 | dd50c7f25da41d66df025a34b967941e6fc218a021a8d5e98957e22258908df9 |
File details
Details for the file wes_service-3.1-py3-none-any.whl.
File metadata
- Download URL: wes_service-3.1-py3-none-any.whl
- Upload date:
- Size: 24.5 kB
- Tags: Python 3
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/1.11.0 pkginfo/1.4.2 requests/2.21.0 setuptools/40.6.3 requests-toolbelt/0.8.0 tqdm/4.24.0 CPython/3.5.3
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | 5ab29b4c9921aa74b9a6b55eeba7140482af2ea63d930687bb48566d4492ff8d |
|
| MD5 | 896c38c9ad2afd237cbd505dca43d91b |
|
| BLAKE2b-256 | c99e8e7eb3563ea49b8584d5f21061e0f8e80a3ea68a7bb791b769265dc92ac9 |
File details
Details for the file wes_service-3.1-py2-none-any.whl.
File metadata
- Download URL: wes_service-3.1-py2-none-any.whl
- Upload date:
- Size: 28.6 kB
- Tags: Python 2
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/1.12.1 pkginfo/1.5.0.1 requests/2.21.0 setuptools/40.6.3 requests-toolbelt/0.8.0 tqdm/4.29.1 CPython/2.7.13
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | 585f52c5d2d97d4c005ed00a43982b8d6af7919db455531ca5e264377e1d0e24 |
|
| MD5 | 8bbb8d8f8bde21647dae271de1017883 |
|
| BLAKE2b-256 | ccb22741107ce642133a9ad39cf72ff3af2adbb6c724980e245fbdd894d678ea |
