Updating to MeLuDi 1.2

Updating to MeLuDi 1.2 requires some manual changes to the items that already exist. This is due to the decision to exchange the annotation type MutationAnalysis option value "KRAS_NRAS" for two new values "KRAS" and "NRAS", since currently few samples have been registered with the former value, and new referral forms contain individual check boxes for the two latter choices. The affected sample items should have the MutationAnalysis annotation updated as part of the installation to have both values "KRAS" and "NRAS" selected, instead of "KRAS_NRAS", since the latter option will no longer be available. See ticket:725 for more information. Follow this procedure:

1. Exchanging Mutation Analysis option value "KRAS_NRAS" for "KRAS" plus "NRAS"

a. Update to MeLuDi 1.2

Among other things, this will add option values "KRAS" and "NRAS" for the MutationAnalysis annotation.

b. Exchange MutationAnalysis annotations for all relevant cases

Find all Case items that have value "KRAS_NRAS" for the MutationAnalysis annotation. Select each item in BASE, and open the Edit dialog. In the "Annotations & parameters" tab, select annotation MutationAnalysis, and check both values of "KRAS" and "NRAS", while unchecking "KRAS_NRAS". Click the "Save" button to store the changes.

c. Remove option value "KRAS_NRAS" for the MutationAnalysis annotation

Select BASE menu option Administrate -> Types -> Annotation types to display a list of annotation types. Select the MutationAnalysis annotation type, and open the Edit dialog. In the "Options" tab, remove option "KRAS_NRAS" from the list of allowed values. Click the "Save" button to store the changes.

2. Add extraction protocols

The "Lab tracking protocol for Allprep isolation" wizard supports selecting an extraction protocol. Protocols for the extraction process have to be added into BASE by the administrator.