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Specimen Tracking

This wiki assumes you are familiar with setting up clean Galaxy and focuses only on the specimen tracking aspects.

Initialization

Due to the proof-of-concept state of the project the initialization of specimen tracking is partially manual and requires an administrator.

1. Create a role for your project (through the admin UI)

• associate selected users with this role
• you can optionally also create a group that will contain the users allowed to access the project's specimens

1. Create a project connecting with the role (through the API)

• this step does not have interface yet
  • you need to obtain the encoded role ID by visiting yourgalaxyURL/api/roles
  • then create the project via POSTing to /api/projects, it should contain these attributes:

  "key=API_KEY" //provide your api key (admin)
  "name=child_obesity" //select any name
  "encoded_role_id=f597429621d6eb2b" //the one you found in the previous step
  

  You can use the provided python script: https://github.com/specimentracking/galaxy/blob/specimen_tracking_15.10/scripts/api/specimen_tracking_create_project.py

1. Next step would involve modifying specimen-model.js but I am currently working on providing a UI for this step as it would require too much overhead for the admin