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Userprofile

The user profile is an InterMine ObjectStore which stores Profile information such as username and password, tags, queries, lists and templates.

Creating a new UserProfile database

First you must create the empty database in Postgres.

# create the new empty database
~/git/flymine $  createdb userprofile-biotestmine

These commands are needed in the webapp to initialise a userprofile database:

# this comment populates superuser, default templates etc.
~/git/flymine $ ./gradlew buildUserDB

Releasing a webapp with a new production database

If you already have a userprofile database and want to keep the data it contains, you can do this:

  1. Verify that the serialNumber in the new production db and in the userprofile are different. Only in this case, the upgrading list process updates the lists when the user logs in
# run in production and userprofile database.  when releasing a new product
select * from intermine_metadata where key='serialNumber';
  1. Release the webapp pointing to the new production db.
  2. In the savedbag table the field intermine_state should be set to false.
  3. When the user logs in, the upgrading list process will update the list (using bagvalues table)
  • if there are no conflicts the flag will be set to true and the user will not have to take any action
  • if there are issues (eg. if a gene has merged with another) the flag will be set to false, and the user will have to manually upgrade their list.

Templates and tags

Default templates and tags are defined in default-template-queries.xml.

These are loaded when you build a userprofile database.

Back ups

For our mines, we have a script to back up the user databases every five minutes, but only if there has been a change.