Set subtype for all biomaterial items

[Nicklas Nordborg]

This is a manual task that the administrator of the server must do manually or with the help of export and batch import plug-ins.

The generic procedure is to export the internal id and name of all biosources, samples and extracts, edit the exported files and then import changes with the batch importers.

Biosources

1. Export id and name of all biosources to a tab-separated file.
2. Run the biosurce batch importer. Use 'Internal ID' as the identification method and set the 'Item subtype' column mapping to Patient. Also, enable 'Complex column mappings'

Samples

1. Export the id and name of all samples to a tab-separated file
2. Add 'Item subtype' column to the exported file and put 'Case', 'Specimen' or 'Histology' for each item
3. Run the sample batch importer. Use 'Internal ID' as the identification method and set the 'Item subtype' column mapping to \Item subtype\.

Extracts

1. Similar to the sample export. The only used subtype is 'Lysate'.

[Jari Häkkinen]

Good instructions!