X-Git-Url: https://git.arvados.org/arvados.git/blobdiff_plain/78baf73e784e01fb44d1b16aefaf6e295bb4d5b4..51b150baaa5148228156af65ccd6676e65935c41:/doc/user/cwl/cwl-runner.html.textile.liquid diff --git a/doc/user/cwl/cwl-runner.html.textile.liquid b/doc/user/cwl/cwl-runner.html.textile.liquid index b6773c9f32..473e7b3168 100644 --- a/doc/user/cwl/cwl-runner.html.textile.liquid +++ b/doc/user/cwl/cwl-runner.html.textile.liquid @@ -6,10 +6,10 @@ title: Using Common Workflow Language The "Common Workflow Language (CWL)":http://commonwl.org is a multi-vendor open standard for describing analysis tools and workflows that are portable across a variety of platforms. CWL is the recommended way to develop and run Workflows for Arvados. Arvados fully supports the "CWL draft-3":http://commonwl.org/draft-3 specification. -h2. Getting the example files - {% include 'tutorial_expectations' %} +h2. Getting the example files + The tutorial files are located in the documentation section Arvados source repository: @@ -21,17 +21,16 @@ The tutorial files are located in the documentation section Arvados source repos The tutorial data is hosted on "http://cloud.curoverse.com":http://cloud.curoverse.com (also known as *qr1hi*). If you are using a different Arvados instance, you may need to copy the data to your own instance. The easiest way to do this is with "arv-copy":{{site.baseurl}}/user/topics/arv-copy.html (this requires signing up for a free cloud.curoverse.com account). -

-~$ arv-copy --src cloud --dst settings 2463fa9efeb75e099685528b3b9071e0+438
+
~$ arv-copy --src cloud --dst settings 2463fa9efeb75e099685528b3b9071e0+438
 ~$ arv-copy --src cloud --dst settings ae480c5099b81e17267b7445e35b4bc7+180
 
If you do not wish to create an account on "http://cloud.curoverse.com":http://cloud.curoverse.com, you may download the files anonymously and upload them to your local Arvados instance: -https://cloud.curoverse.com/collections/2463fa9efeb75e099685528b3b9071e0+438 +"https://cloud.curoverse.com/collections/2463fa9efeb75e099685528b3b9071e0+438":https://cloud.curoverse.com/collections/2463fa9efeb75e099685528b3b9071e0+438 -https://cloud.curoverse.com/collections/ae480c5099b81e17267b7445e35b4bc7+180 +"https://cloud.curoverse.com/collections/ae480c5099b81e17267b7445e35b4bc7+180":https://cloud.curoverse.com/collections/ae480c5099b81e17267b7445e35b4bc7+180 h2. Submitting a workflow to an Arvados cluster @@ -107,7 +106,7 @@ If you reference a local file which is not in @arv-mount@, then @arvados-cwl-run h2. Registering a workflow with Workbench -Use @--create-template@ to register a CWL workflow with Arvados Workbench. This enables you to run Workflows by clicking on the "Run a pipeline..." button on the Workbench Dashboard. +Use @--create-template@ to register a CWL workflow with Arvados Workbench. This enables you to run Workflows by clicking on the Run a pipeline... on the Workbench Dashboard.