| | 1 | = Updating to Reggie 2.7 = |
| | 2 | |
| | 3 | Updating to Reggie 2.7 require some manual changes to the `NoSpecimen` items that already exists. This is required since we have not stored the LATERALITY for those items. We need to check the laterality on the parent `Case` item and copy that information to the `NoSpecimen` items that doesn't have a value. For more information see ticket:399. |
| | 4 | |
| | 5 | Follow this procedure: |
| | 6 | |
| | 7 | == 1. Update to Reggie 2.7 == |
| | 8 | |
| | 9 | == 2. Generate a list of all `NoSpecimen` items without laterality == |
| | 10 | |
| | 11 | * Go to the samples list page and filter on `NoSpecimen' and no laterality. |
| | 12 | * Export the name and parent of all items found and save that to the local computer. |
| | 13 | * Create a biomaterial list with `Member type=Sample` and the `Include pooled` option checked. This should create a list with all `NoSpecimen` items and their parent `Case` items. |
| | 14 | |
| | 15 | == 3. Generate a list of all `Case` items == |
| | 16 | |
| | 17 | * Change the filter on the samples list page to list `Case` items. Remove all other filters. |
| | 18 | * Display the `Biomaterial list` column and use the biomaterial list created above as a filter. |
| | 19 | * Export the name and laterality for all cases that are found and save that to the local computer. |
| | 20 | |
| | 21 | == 4. Use Excel/OpenOffice or compatible to map laterality to `NoSpecimen` == |
| | 22 | |
| | 23 | * The two files that has been exported should include all information that is needed to find the laterality for a given `NoSpecimen` item. With a spreadsheet program as Excel it should be possible to create a formula to do this. |
| | 24 | |
| | 25 | * TODO -- how to create a formula |
| | 26 | |
| | 27 | * Save the result as a tab separated text file, upload it to BASE and use the annotation importer to import the laterality values. |
