Opened 7 years ago

Closed 7 years ago

#340 closed task (fixed)

Set subtype for all biomaterial items

Reported by: nicklas Owned by: jari
Priority: blocker Milestone: Reggie v2.1
Component: net.sf.basedb.reggie Keywords:
Cc:

Description

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'.

Change History (3)

comment:1 Changed 7 years ago by nicklas

  • Owner changed from nicklas to jari

comment:2 Changed 7 years ago by jari

  • Status changed from new to assigned

comment:3 Changed 7 years ago by jari

  • Resolution set to fixed
  • Status changed from assigned to closed

Good instructions!

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