Features

• Users need to agree to a Privacy Policy when logging in. This feature can be turned off in Settings > Authentication Settings

• Changes to the FAIR module to support the new specification of the FDP. In the EMX file, some tags have been deleted (e.g., the ones from r3d ontology) or replaced and some others have been added (e.g. some fdp-o specific terms such as fdp-o:MetadataService). Also, in the model two attributes have been added to the FDP entities (Metadata, Catalog, Dataset and Distribution):

  • hasMemberRelation, to specify the IRI of the property of the entity that contains children of the FDP Resource
  • directContainerTitle, a string with the title of the LDP DirectContainer with the navigation information for the Resource

This release increases the REST API v2 upload limit to 5000 (was 1000).

This release contains a Spring Framework upgrade to mitigate CVE-2022-22965

This release contains a Spring Framework upgrade to mitigate CVE-2022-22965

This release requires a complete reindexing, even if you've already installed a previous MOLGENIS 10.0.x

Fixes

#9386 Search-all slow, inconsistent with previous versions and in some cases completely broken

Fixes

Fix #9376 Molgenis no longer waits for Elasticsearch to be up

Breaking changes

Elasticsearch 7.15.0

• The Elasticsearch client is upgraded to high level REST client version 7.15.0.
• The Elasticsearch backend needs to be version 7.x. Version 7.15 and up are supported on JDK 17.
• Reimplements search on * attribute (*=q=searchterm) in a way that combines searches on the individual attributes and the individual attributes of references (1 level deep)
• Switches to high-level REST client. The old tcp client is deprecated.

MOLGENIS configuration changes

• The configuration property for Elasticsearch changes from elasticsearch.transport.addresses to elasticsearch.hosts.
• The default server port changes from 9300 (native) to 9200 (http REST).

Elasticsearch configuration changes

• If your Elasticsearch server does not run on localhost, you need to configure the server's network.host setting, since by default it restricts traffic to the localhost.

Upgrading existing servers

To upgrade, you need to remove the existing Elasticsearch 5 installation, including the indices, and install a fresh Elasticsearch 7.x. Molgenis will recreate the indices when it boots.

Features

• Admin endpoints for getting the value of a database sequence and deleting a sequence (docs)
• Improved search behaviour of the mref filter in the Data Explorer
• Template expressions now support simple math operations (with the molgenis-math helper) (docs - look for "Math helpers")

Bugfixes

• #8505 Inconsistent search operator behaviour
• Data Explorer 1 now has compounds visible by default

Frontend

The new release of the frontend contains various features and fixes in the forms.

Bugfixes

• fix: enable auto id pattern scrambler

Features

• You can now update your apps in the App Manager instead of having to remove and re-upload an app.
• Configurable patterns for automatically generated identifiers that increment sequentially. Read more about it in the documentation

Bugfixes

• #9335: Change password validation is broken