News
2024.11.05
openBIS 20.10.10 is now available.
This release does not contain new features for users nor bug fixes, but changes to improve the use of openBIS docker in production environments:
- move rotateLogFiles from datastore_server.sh and datamover.sh
- Make SFTP Certificate configurable on the dss service.properties
- Forward all properties from plugins we ship to the as and dss service.properties
- Forward all properties from plugins we ship to OS environment variables
- ELN: Move InstanceProfile.js parameters to the ELN Settings UI
2024.08.16
openBIS 20.10.9.1 is now available. It contains a single fix for the following bug:
- text fields containing images fail to show the content in view mode (content is visible in edit mode). This happens when fields contain base64 encoded information that follows a pattern that looks like an openBIS identifier.
This bug was a blocker that needed urgent fixing.
We are aware of a second bug reported for 20.10.9, where links to openBIS entities in text fields are now shown as full URLs (Bug in visualization of links in 20.10.9 – #3 by JuliaD). This is connected to a new feature introduced in openBIS 20.10.9, where it is possible to type an identifier as text in a text field and this is automatically recognized by openBIS and converted to a link.
A fix for this will be provided soon.
2024.07.31
openBIS 20.10.9 is available.
The main new features and bug fixes contained in this version are:
- Export and import of entities with images embedded in text. openBIS 20.10.8 introduced a new export/import feature, but support for images embedded in text was missing.
- Renamed “pdf” folder to “hierarchy” in export.
- Bug fix: pdf generation failed if form contained multiple colored spans.
- Bug fix: calculated values in spreadsheet printed as formula in pdf, instead of value.
- Bug fix in creating storage positions. This bug was introduced in 20.10.8.
- Changes to configuration for default eln-lims dropbox import. It is now possible to configure how hidden files and files with special characters in names should be handled when imported with the default eln-lims dropbox.
- Object properties in Excel file exported as identifiers instead of PermIDs.
- Show user account info in admin UI.
The full list of changes is available here: https://openbis.readthedocs.io/en/20.10.x/system-documentation/changelog/CHANGELOG.html
This openBIS version can be downloaded from the production releases page of our wiki:
https://unlimited.ethz.ch/display/openbis/openBIS+Download+Page
2024.05.30
openBIS 20.10.8 is available
The main new features and bug fixes contained in this version are:
- New export/import functionality: It is now possible to export every level of the openBIS hierarchy in openBIS import-compatible mode or non-import-compatible mode. In the first case, the export can be imported in a separate openBIS instance via the admin UI and the eln-lims default dropbox.
- Print pdf. It is now possible to generate a pdf of every openBIS entity.
- Removal of versioning in masterdata. It is no longer necessary to update version numbers when updating masterdata via Excel files.
- Removal of eln-lims-life-science data types from installer and separation of standard types and basic default types:
- Bug fix: cannot move an object with children if storage position is assigned to the object.
Known limitation: images embedded in text fields are not currently exported in the xlsx metadata folder and cannot be re-imported. This is documented (https://openbis.readthedocs.io/en/20.10.x/user-documentation/general-users/data-export.html#export-to-file) and will be fixed in a follow up release, planned for June 2024.
The full list of changes is available here:
2023.11.23
openBIS 20.10.7.3 is available.
This version contains an important fix for a bug that was very recently introduced affecting openBIS versions from v20.10.7.0 included.
This bug could lead to the loss of certain parent/child annotations under very specific conditions.
This bug manifests when both sides of a parent/child relationship contain annotations to each other (see here for parent/child annotations: https://openbis.readthedocs.io/en/latest/user-documentation/general-admin-users/admins-documentation/customise-parents-and-children-sections-in-object-forms.html). In such cases, when one annotation is updated (on the parent or child), the annotation information on the second one is removed. Please see configuration example attached.
We strongly recommend to upgrade to v20.10.7.3 as soon as possible.
openBIS download page: https://unlimited.ethz.ch/display/openbis/Production+Releases
2023.10.13
openBIS 20.10.7.2 is available.
This version contains primarily bug fixes and improvements:
ELN UI:
- Improvement: Make object property a link
- Improvement: Support spaces for separation of identifiers in parents/children addition using PASTE ANY
- Improvement: Support PermIDs in the PASTE ANY Parent/Children Search
- Improvement: Rename “Scan barcode” to “Scan QR codes/ barcodes” everywhere in ELN UI
- Bugfix: Collection /ELN_SETTINGS/TEMPLATES/TEMPLATES_COLLECTION not created in new multi-group instances
- Bugfix: XLS Imports and ELN UI don’t support URLs with certain special characters
- Bugfix: Issues with calculations in ELN spreadsheets
- Bugfix: Cannot delete positions in box, when multiple positions are assigned to an object
- Bugfix: General Settings of the ELN overwrite the Group settings in multi-group instances
- Bugfix: Explicit “false” is not saved for “boolean” properties
Admin UI:
- Improvement: Version in XLS Master Data Importer is now optional
Core:
- New Feature: V3 API – Import
- New Feature: V3 API – Provide bundles with all V3 API JS files
- New feature: User Management Task : Task does not remove manually added users and roles
- Bugfix: User Management Task : Task should not create a second user space if a user is de-activated and re-activated
- Bugfix: PAT : Remove hash from validity PAT warning emails
The full list of changes is available here:
https://unlimited.ethz.ch/display/openBISDoc2010/openBIS+20.10+Change+Log
2023.09.08
The following 2 GitHub repositories have been made available to share openBIS data models and developements:
- GitHub – openbis/community-data-models: A Repository of community developed openBIS data models. You can upload here your openBIS data models that you wish to share with the openBIS community.
Please follow the instructions in the repo README file. - GitHub – openbis/community-tools-directory: A Repository of community developed openBIS tools. If you have developed an openBIS plugin that you would like to share with the openBIS community, you can add a link to your own git repo on the README file of this repo.
2023.07.26
openBIS v 20.10.7.1 is available.
This version contains a few bug fixes and improvements, no new features:
- Improvement ELN: ELN dropbox provides a report of error messages when registration fails
- Improvement ELN: Empty folders not shown in ELN navigation menu
- Improvement Admin UI: added explanation for Vocabulary type template
- Bug fix ELN: Back button not working on object tables in ELN Project overview
- Bug fix ELN: Zenodo export not working correctly in single-group set up
- Bug fix ELN: missing overview of datasets in dataset viewer forms in openBIS v20.10.7
The full list of changes is available here:
https://unlimited.ethz.ch/display/openBISDoc2010/openBIS+20.10+Change+Log
2023.07.05
openBIS v 20.10.7 is now available.
The most relevant new features and bug fixes are:
- New Barcode / QR Code widget supporting scanner and camera from mobile devices in all places where barcodes could be used in the UI:
- Dataset table in Object and Collection Forms: https://openbis.ch/index.php/docs/user-documentation/lab-notebook/datasets-tables/
- NOT operator in Advanced Search: https://openbis.ch/index.php/docs/user-documentation/search/advanced-search/
- Changes to Project overview page: https://openbis.ch/index.php/docs/user-documentation/lab-notebook/project-overview/
- Removed integration with Plasmapper 2.0. This was done following the decommissioning of the Plasmapper 2.0 service.
- Bug fix: some property types in the admin UI could not be deleted if they had values assigned.
The full list of changes — new features and bug fixes — is available here:
https://unlimited.ethz.ch/display/openBISDoc2010/openBIS+20.10+Change+Log
2023.04.26
openBIS v20.10.6 is now available.
The most relevant new features and bug fixes are:
- New navigation menu in ELN interface. In addition to the new look, the new menu has several new features, such as filtering and sorting. For the full list of functionalities check the documentation
- Improved tables exports. It is now possible to export tables in an openBIS import-compatible format or not. The two exports differ as explained in the documentation:
- Support for zip import in admin UI. https://openbis.ch/index.php/docs/admin-documentation/masterdata-exports-and-imports/
- Changes to default eln-lims dropbox. The new dropbox script no longer requires 2 folders for data ingestion, only 1 folder with the name generated from the openBIS UI:
- Possibility to configure notifications of dropbox data upload failure. It is possible to configure who should receive email notifications for dropbox upload failures:
- Dropbox monitor. It is possible to monitor the status of data upload via dropbox from the ELN interface:
- Search datasets by size in ELN UI. It is now possible to search datasets based on their size. An example of this functionality is described in the dataset archiving documentation:
- New feature for reading barcodes from mobile devices:
- Improvement to masterdata update in admin UI. It is now possible to use “update if exists” if the masterdata file contains $ properties.
- Fix for PATs to work with email as username.
The full list of changes is available here:
https://unlimited.ethz.ch/display/openBISDoc2010/openBIS+20.10+Change+Log
Before upgrading to this release version, check the list of pending configuration changes:
https://unlimited.ethz.ch/display/openBISDoc2010/Pending+20.10+Configuration+Changes
This version can be downloaded from the production releases page of our wiki:
https://unlimited.ethz.ch/display/openbis/openBIS+Download+Page
2022.05.12
openBIS v20.10.5 is now available.
The most relevant new features and bug fixes are:
- XLS exports in ELN UI: tables in the ELN can now be exported in XLS format (instead of .tsv). This export is compatible with the XLS imports for batch updates:
- XLS exports in admin UI. Types tables can now be exported from the admin UI. The exported XLS files can be imported in the admin UI. This facilitates exchanges of data models between different openBIS instances:
- New navigation menu preview in admin UI. It is now possible to navigate the openBIS hierarchy from the admin UI. This navigation menu is a preview of the new navigation menu that will be included in the ELN in the next openBIS minor release in 2023.
- Semantic annotations in XLS masterdata. It is possible to use semantic annotations for types in the XLS masterdata. Annotations are not yet visible in the ELN and admin UI, this will be included in the next openBIS minor release in 2023.
- Parents and children kept in ELN templates. Previously when Object templates created in the ELN contained parents and children, these were not copied over when the templates were used. This is now fixed.
- Improvements to ELN settings in multi–group instances.
- Personal Access Tokens (PAT): simplify integration with other systems, by avoiding to provide username and password for authentication. PATs can be long-lived:
The full list of changes is available here:
https://unlimited.ethz.ch/display/openBISDoc2010/openBIS+20.10+Change+Log
This version can be downloaded from the production releases page of our wiki:
https://unlimited.ethz.ch/display/openbis/openBIS+Download+Page
2022.10.25
openBIS community forum now available: https://community.openbis.ch