16.1.0 MINERVA Release#

3 Feb 2022#

Improvement:#

• Possibility to register the map in MINERVA-NET.

Small improvement:#

• The list of reaction types in Info Tab > EXPORT > NETWORK is now simplified.

• Export as image allows to define the size of an image.

• The progress bar on a project upload is changed into more verbose statements.

• AVOGADRO unit type from SBML format is parsed properly.

• Data overlays have automatically generated legend.

• The list of users is upgraded with information about currently logged in users.

• Possibility to provide the image coords for Show overview as json file.

• Possibility to show reaction’s name.

• Export to SBML provides information about parent-child complex relation using multi package.

• API converter is case insensitive for the name of a file.

• Modification residues can use different color then species if format allows (SBGN, SBML).

• Element id is shown in search results in the left panel.

• There is possibility to provide custom CSS style in Configuration: Legend and Logo.

• API provides information about modifier type.

• map file for JavaScript is properly referenced.

• Z-index for modification residues and structural states is imported from SBML file if available.

• Debian installation creates db.properties file that is readable only by tomcat user

• Import/export of the text objects in SBML is supported.

• CellDesigner texts inside Layer Text with the name “text” are visible on the map and not transformed into pathways.

• When free space on device drops under 10MB images will not be generated to prevent using all space on HDD.

• Additional validation to REST input added.

• Validation for projectId added when creating project using API.

• Additional SBGN-ML glyphs are supported: biological activity, outcome, entity, observable, interaction.

• Additional SBGN-ML reactions are supported: interaction, positive influence, negative influence, unknown influence, absolute stimulation, absolute inhibition.

• Additional annotations are supported - check them out here.

Fixed:#

• API endpoints were exposed without ‘api’ prefix.

• Anonymous user could upload file using API.

• When passing JSON in patch/post methods contentType was not checked.

• API does not allow to create plugin with wrong md5 hash.

• Currently, when exporting to CellDesigner make sure that layer id is numeric.

• Pathway name was not drawn if there was an element with the same name contained inside that pathway.

• Help dialog is closed automatically after Add Project dialog is closed.

• Minerva root url must be valid url pointing to Minerva instance.

• There were missing lines when exporting truncation and dissociation reaction to GPML.

• Some SBML files were recognized as CellDesigner files during upload.

• The middle of any reaction line was not highlighted.

• When accessing data from cache in parallel, sometimes an unexpected exception was thrown.

• Transcription factor color is set to black in background Empty.

• Modifier line end points were not modified when importing from SBGN, there was a gap displayed between line end point and process box.