aws-samples / aws-samples/aws-healthomics-tutorials

Include workflow definition

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Dominant language
Python
Stars
94
Forks
42
PR merge metrics
No merged PRs in 30d

Description

I would like to test out these OMICS ready workflows by creating them as private workflows within my OMICS account. When creating a workflow in OMICS you need to upload a workflow definition folder as a zip file and then provide parameters either manually or through a json file. Could each workflow folder be compressed as a zip file and include a json file for the parameters; just as you would need to create a workflow in OMICS? For example example-workflows/nf-core/workflows/rnaseq would get two new files maybe rnaseq.zip and input_parameters.json. Thanks.

Contributor guide

Open the contributing guide

Research direction

Start with example-workflows/nf-core/workflows/rnaseq and inspect the workflow definition files and existing repository conventions. Prepare a zip archive and an input_parameters.json file for this workflow, then check the other workflow folders for the same treatment. Done means each requested workflow can be uploaded to an OMICS account with parameters supplied from the included JSON file.

Written by the indexing model from the issue text.

Assessment

Tech stack
json
Domain
cloud
Issue type
Feature
Difficulty
3/5
Estimated time
1-2 days
Activity status
Stale
Clarity
Mostly clear
Newbie friendliness
45/100

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