Mobi Release Notes

Fixed an issue in the mobi:export-records command where commit revision graphs were not separately properly

(ENTERPRISE) Consolidated the LDAP configuration to a single property for the server hostname

Fixed an issue where tag names were not truncated in the commit history graph for Versioned RDF Records

(ENTERPRISE) Fixed an issue where the markdown editor for record overview’s was not rendering

Introduced a configuration property for read timeouts when resolving imported ontologies from the web

Improved upload changes performance with proper handling of option repository transactions

Fixed an issue where the "Go To" button did not work on the owl:Ontology object

Fixed an issue where long binding names would cause the SPARQL editor to expand horizontally off the screen

Fixed an issue where tag names were not truncated in the commit history graph

Fixed an issue where the Search tab results wouldn’t display a name for the owl:Ontology object if it had no label or title

Fixed an issue where entered keyword text would not clear in the new record modal when uploading more than one record at a time

Fixed an issue where the editor would intermittently report being behind the head commit of the target branch of a direct merge if the "Delete Source Branch" checkbox was checked

Improved upload changes performance with proper handling of option repository transactions

Fixed an issue where entered keyword text would not clear in the new record modal when uploading more than one record at a time

Fixed an issue where the editor would intermittently report being behind the head commit of the target branch of a direct merge if the "Delete Source Branch" checkbox was checked

(ENTERPRISE) Fixed an issue where the markdown editors for merge request comments were not rendering

Moved the Publish tool out from under the Ontology Editor in the navigation menu to indicate the new support for publishing all types of Versioned RDF Records

Restructured the publish endpoint to simplify the expected RDF body and move the Record and Commit IRIs to publish from query parameters to the RDF body

Fixed an issue where GraphDB publishes were not run asynchronously

Fixed an issue where Anzo publishes could be submitted without specifying a target Anzo server

Fixed an issue where user displays in the Publish pages didn’t include a tooltip with the username

Added support for mapping properties with no range or a range of owl:Thing

Added datatype format validation to the instance creator/editor in the Explore page

Fixed an issue where long binding names would cause the SPARQL editor to expand horizontally off the screen

Fixed an issue where boolean property values could not be removed when creating/editing an instance in the Explore page

Introduced configuration, backend thread-handling, and UI support for running more than one workflow at a time including tracking when workflow executions are "rejected" with an activity

Added button to toggle a full screen view of the workflow graphical display

Fixed an issue where port numbers were stripped off URLs configured in HTTP Request Actions before execution

(ENTERPRISE) Added brand new UI for configuring LDAP, SAML, and OAuth/OpenID integrations with full file upload support and help text

Fixed an issue where datatype property values on Individuals and Concepts in the Ontology Editor could not be removed

Added support for textarea inputs in the SHACL web form framework

Added support for dropdown inputs in the SHACL web form framework that can pull values from a static list

Added support for autocomplete inputs in the SHACL web form framework that can pull values from the backend

Added a flag to the restore command to replace the Mobi home directory in any Binary File paths with a new installation directory

Updated the backup and restore commands to include the entire virtual files directory and unpack it in the new installation

Updated Checkstyle rules to support Java 17

Removed all usages of the net.sf JSON library

Updated nightwatch version to 3.4.0 used for automated functional tests

Fixed an issue where the Swagger UI was incorrectly splitting JSON-LD array data passed in form data to certain endpoints

Updated user experience to align with layout of the Shapes Editor with existing Ontology Editor tabs and functionality underneath the top header

Updated branch select to pull the latest details about branches, tags, and commits on open

Adjusted display of options in record and branch select to be more compact and clearly display which option is selected

Added ability to download and delete records from the record select

Added ability to edit branches from the branch select

Moved upload snackbar to a button that opens a log of recent uploads and their success/failure

Fixed an issue where English language SKOS-XL labels were not used in the Concepts and Schemes hierarchies and selected entity displays

Fixed an issue where the full IRI of a property was only displayed when hovering over the truncated IRI display, not the property title

Added support for publishing SKOS vocabularies and OWL ontologies to an Anzo instance

Fixed an issue where the username of displayed users was not displayed on hover

Aligned section headers to look the same as in the Ontology Editor

Updated branch select to pull the latest details about branches, tags, and commits on open

Adjusted display of options in record and branch select to be more compact and clearly display which option is selected

Added ability to download and delete records from the record select

Added ability to edit branches from the branch select

Added ability to create a new empty shapes graph in addition to uploading a shapes graph file

Added ability to upload multiple shapes graphs at once

Added button to open a log of recent uploads and their success/failure

Fixed an issue where extremely long Shapes Graph IRIs would trail off of the screen

Fixed an issue where the full IRI of a property was only displayed when hovering over the truncated IRI display, not the property title

Fixed an issue where blank nodes in the Shapes Graph data were not properly tracked in changes causing broken blank node chains

Added support for reopening a closed merge request as long as both the source and target branches still exist

Fixed an issue where some unnecessary REST requests would occur when logging out while viewing an individual merge request

Fixed an issue where an uncommitted change to the source ontology of a mapping was displayed when previewing the mapping on the landing page

Added new UI that enables you to view, create, edit, delete, and maintain Workflow Records within the system

Added new type of Workflow Action for executing HTTP Requests

Added support for connecting to a password protected Dagu installation

Updated Workflows validation to pull any referenced entity information into the "closed-world" validation perspective

Updated Action Execution model to include a property pointing to the Action that was executed

Fixed an issue where exceptions thrown during the beginning of a workflow execution did not close out the activity properly

Revamped the restore process to be modular and extensible with detailed logging

All references to users through the application now display the first name and last name of the user if available and otherwise display the username

(ENTERPRISE) Updated OpenID SSO configurations to refetch the latest public keys if a token’s signing algorithm could not be found in the cached list

Fixed an issue where system policies would be duplicated on disk if restoring a backup that contained edited versions of the policies.

(ENTERPRISE) Fixed an issue where LDAP configurations with an admin account would not perform proper password validation on user logins

(ENTERPRISE) Fixed an issue where an LDAP exception displayed in the Login Page would cause the login form to go off screen

Updated the commit history graph to display all current branch titles whose head commits are visible in the selected graph

Fixed an issue where multiple error toasts would appear when logging out while viewing the permissions of an individual Record

Added manual zooming functionality to the Ontology Visualization with "zoom-to-fit" in addition to zooming via scrolling

Updated the commit history graph to display all current branch titles whose head commits are visible in the selected graph

Updated the landing page to disable the Create and Upload Ontology buttons if the user does not have permission to create Ontologies. Also disables the drag and drop to upload functionality

Updated the Object Property Overlay used for individuals, concepts, and concept schemes to utilize the range of the selected property when displaying value options

Fixed an issue where the new entity snackbar would still be displayed after committing and navigating away from the Ontology Editor

Fixed an issue where type headers in the Search tab would open and collapse together instead of individually

Added new UI that displays all configured Publish Services from the Extensible Publishing Framework

Added new support for publishing Ontology Record data to a GraphDB repository (see GraphDB Publishing for more details)

Updated the commit history graph to display all current branch titles whose head commits are visible in the selected graph

Added a new "Closed" status and workflows for Merge Requests including filtering support

Added better permissions to various Merge Request actions including: deletion of Merge Requests and editing of Merge Request metadata

Enabled support for editing comments made on a Merge Request

Fixed an issue where multiple error toasts would appear when logging out while viewing an individual Merge Request

Added a system policy for who can Create Mapping Records

Added the ability to edit mappings where the imports closure has been changed to be incompatible since the mapping was created

Added support for utilizing all ranges of an Object Property for a Property Mapping

Updated the commit history graph to display all current branch titles whose head commits are visible in the selected graph

Updated the landing page to disable the New Mapping button if the user does not have permission to create Mappings

Changed all backend query requests to use GET instead of POST to avoid browser URL limits

Fixed an issue where the form validity of the Add Property Mapping overlay would not always update properly when switching between selected properties

Updated the landing page to disable the New Dataset button if the user does not have permission to create Datasets

Fixed an issue where the Explore tool would throw an error when trying to add a data property with a boolean range to an edited instance

Fixed an issue with incorrect spelling in an internal IRI

Fixed an issue preventing restores where a missing configuration file was expected to be present

Fixed an issue where publish policy was not properly controlling users' ability to publish

Fixed an issue where the Create Mapping Record policy was not included by default, preventing users from being able to create Mappings

Generalized the ontology namespace and frontend logic behind the SHACL powered web forms (such as those in the Settings Framework)

Refactored the core OSGi Catalog services to be separated by purpose and reduce potential service injection cycles

Added new OSGi Event Topic for commits to branches to enable pub/sub workflows based on commit activity

Fixed styling inconsistencies with the help menu links

(ENTERPRISE) Fixed SAML redirect issue that caused the browser to redirect the user to the Swagger docs

Filtered the listed activities in each tab of the activity log by Record View permissions

Fixed an issue where bullet points were not rendered in markdown displays

Fixed an issue in keyword filter where the load more button would appear when all keywords were already displayed

Changed the "Search" tab to include both the original "Find" functionality and a new "Query" view with a SPARQL query editor

Added support for xsd:date as a range for datatype properties

Removed extraneous DELETE /ontologies/{ontologyId}/branches/{branchId} endpoint in deference to the general DELETE /catalogs/{catalogId}/records/{recordId}/branches/{branchId} endpoint

Added a 150 character limit to branch names

Fixed an issue where clearing a selected value in the Object Property Overlay would not re-add it to the displayed list of options

Fixed an issue where individuals could not be deleted from the "Individuals" tab

Fixed an issue where blank node values displayed in Manchester Syntax in the "Search → Find" view were not styled like the other tabs

Fixed an issue where intermittently incorrect usages were displayed when following links in Axiom sections

Fixed an issue where the Commits tab was not properly selected when checking out a commit that removed the Schemes and Concepts tabs

Fixed an issue where only the first 50 ontologies in alphabetical order were selectable in each dropdown

Added a 150 character limit to branch names

Restructured the landing page to include pagination, a sort selector, a search bar, and a collection of filters to better assist users searching for specific requests

Added support for creating merge requests for any subtype of Versioned RDF Records, including Shapes Graph Records, and updated displays to indicate the Record type

Fixed an issue where bullet points were not rendered in markdown displays

Fixed an issue where replies to comments were not properly indented

Fixed an issue where a user could be selected as an assignee multiple times

Changed the module to pull ontology data as needed for each view and dropdown to drastically improve performance

Updated the Add Property Mapping overlay to better support properties with multiple ranges, super classes of object property ranges, and properties with no ranges

Added support for using properties whose domain includes the selected class within a owl:unionOf restriction

Fixed an issue where a long list of ontologies in the Mapping Configuration Overlay would cause some fields to not be visible

Fixed an issue where the save button height was not consistent with the other buttons within the tool

Fixed an issue where removing a selected ontology chip from the Create or Edit Dataset Overlays did not unselect the ontology checkbox in the list

Included new Versioned RDF Record type for Workflows

Included new extensible backend OSGi service API for adding to the triggers and actions supported by Workflows (see Workflows for more details)

Included implementation of a Workflow Engine based on Dagu

Included new REST API for creating, executing, and pulling metadata about Workflows

Included new Commit to Branch Trigger for Workflows based on commits to specified branches of specified records

Included new Scheduled Trigger for Workflows based on a specified cron expression

(ENTERPRISE) Introduced a new tab for viewing and updating the current license of the server

Upgraded RDF4J to 4.3.2

Upgraded Angular to 14.13.0

Replaced all usages of the ngx-uiscroll library with the Angular Material CDK virtual scroll functionality

Centralized core provenance ontology and extensions within the provenance repository to make the UI displays of individual activities extensible

Added underlines and consistent styling to all hyperlinks throughout the application

(ENTERPRISE) Fixed an issue where LDAP logins would fail if the authenticating user did not have the permission to search for groups when the admin account should be utilized instead

Added new tab to the Activity card to display recent activity only for the logged in user

Updated logic for displaying the Activity summary statements to dynamically pull from the repository data

Added the ability to filter the list of Records by the creator

Added a tab to the individual Record view to display all the provenance activity related to the Record

Changed upload process to use in progress commits and better transaction isolation levels to improve memory utilization and overall speeds

Changed commit graphs to use a new library for rendering and included display of branches associated with a merge and all known tags represented in the commit list

Updated differences display in merge conflict displays to match the differences display used throughout the rest of the application

Added a REST endpoint to retrieve an ontology’s contents based off the ontology IRI rather than the Record IRI

Added action to dropdowns in the list of ontologies for downloading the latest version of the ontology

Disabled Merge button if the user does not have permission to merge into the target branch

Fixed an issue where saved default ontology namespace did not require a valid separator

Fixed an issue where long imported ontology IRIs did not have tooltips on hover

Fixed an issue where long ontology titles extended past the edge of the list of ontologies

Fixed an issue where reopening an ontology with in progress changes would not display those changes until another change was made

Fixed an issue where Concept and Scheme tabs were not removed properly when switching to a branch without SKOS in the imports closure

Fixed an issue with the Go To button in the search tab would not properly open an entity if it had a transitively attached rdf:List without a rdf:rest property

Fixed an issue where the manchester editor for axioms would not save for datatype property domains

Fixed an issue where hyperlinks in the usages sections were not styled to appear clickable

Fixed an issue where hyperlinks in the Changes tab were not styled to appear clickable

Changed upload process to use in progress commits and better transaction isolation levels to improve memory utilization and overall speeds

Changed commit graphs to use a new library for rendering and include display of all branches and tags visible in the currently displayed commit history

Updated differences display in merge conflict displays to match the differences display used throughout the rest of the application

Disabled Merge button if the user does not have permission to merge into the target branch

Disabled Accept button if the user does not have permission to merge into the target branch of a merge request

Changed commit graphs to use a new library for rendering and include display of all branches and tags visible in the currently displayed commit history

Fixed missing underlines and styling for hyperlinks in the application

Updated README.md to use proper path for Mobi logo and to have updated technology versions

Fixed an issue where access policies were not cleaned up after deleting a Dataset

Fixed an issue where web imported ontologies with multiple types in the returned Content-Type header would not resolve

Enabled filtering of the Merge Requests list based on Record read permissions

Fixed an issue where accepting a merge request with the branch deletion checkbox enabled would cause an endless spinner

Upgraded RDF4J to 4.2.1

Upgraded Karaf to 4.4.3

Upgraded Angular to 9.1.13

Swapped custom webpack build for the frontend to the Angular CLI functionality

Updated Documentation links in the sidebar to the new comprehensive documentation site

Fixed an issue where restarting would reinstall any manually uninstalled a bundles by moving all startup Karaf features to boot features

(ENTERPRISE) Added support automatic redirects using OpenID/OAuth SSO when the request originates from a web solution hosted within the Mobi Platform

Added filtering capability to the ontology visualization tool enabling users to choose what nodes are displayed in the graph

Added support for specifying a datatype for annotation values

Added data and annotation property value validation according to the selected datatype

Fixed an issue where the Edit Individual Types modal would accept values that were not actual classes defined in the imports closure

Fixed an issue where changing the characteristics on a property would rerender the property hierarchy resulting in degradations in performance

Fixed an issue where the Ontology Imports modal would not follow HTTP 301 redirect responses when validating a provided URL

Fixed an issue where RDF/XML parser would accept invalid language tags on ontology upload

Fixed an issue where annotation values stored as IRIs could not be edited

Fixed an issue where switching ontologies when specific entities were selected was not updating the list of annotations and properties shown

Fixed an issue where invalid values were accepted in the Datatype Override field for Property Mappings

Added support for selecting the repository when creating a new Dataset

Fixed an issue where the warning message for large result sets would not clear once displayed

Fixed an issue where updating a user’s email manually would not persist

Fixed an issue where the groups for a selected user would not display when navigating away and back to the Administration page

Upgraded RDF4J to 4.2.1

Upgraded Karaf to 4.4.2

Created a folder in the installation directory to hold all policy templates used for new records and the default system policies (See Mobi Security Policies)

Added a new command to the Mobi Karaf shell that will revert all system policies to the defaults specified in the new directory (See Mobi Security Policies)

Enabled ability to reach the Swagger Documentation without specifying /index.html at the end of the URL

(ENTERPRISE) Added ability to provide a custom relay state on SAML redirects to support custom solutions in the platform to use the Mobi SSO connectivity

Updated all triple changes displays to display triples grouped by property and delineated with ++ and -- symbols

Added "Show Full" toggle to all changes displays except in the Commit Information modal which will display all triples for a particular subject alongside the changed triples

Updated all triple changes displays to display triples grouped by property and delineated with ++ and -- symbols

Added "Show Full" toggle to all changes displays except in the Commit Information modal which will display all triples for a particular subject alongside the changed triples

Added logic to clean up user state associated with a deleted record

Added success toast on commit

Improved performance of hierarchy renders on first load

Fixed an issue where updates to an IRI used in a complex restriction were not reflected

Fixed an issue where results were not shown for a new analysis if the previous analysis results were empty

Updated all triple changes displays to display triples grouped by property and delineated with ++ and -- symbols

Added "Show Full" toggle to all changes displays except in the Commit Information modal which will display all triples for a particular subject alongside the changed triples

Added logic to clean up user state associated with a deleted record

Added success toast on commit

Updated all triple changes displays to display triples grouped by property and delineated with ++ and -- symbols

Added "Show Full" toggle to all changes displays except in the Commit Information modal which will display all triples for a particular subject alongside the changed triples

Updated all triple changes displays to display triples grouped by property and delineated with ++ and -- symbols

Added "Show Full" toggle to all changes displays except in the Commit Information modal which will display all triples for a particular subject alongside the changed triples

Introduced restrictions on uploads to datasets to protect system graphs

Changed the Permissions page to dynamically pull the list of system policies allowing new policies introduced to automatically appear in the list

Fixed an issue where deleting a group referenced in a policy would not allow that policy to be edited

Reverted the Karaf version to 4.4.1 due to a bug with the bin/client script

Upgraded Karaf to 4.4.1

Upgraded Angular to 6.1.10 and removed all usages and references to AngularJS

Upgraded RDF4J to 4.1.0

Upgraded OSGi to 8

Updated the required Java version to 17

Updated the required NodeJS version for building the source to 14+

Updated the required Maven version for building the source to 3.6+

Replaced osgi-jax-rs-connector with Apache Aries Whiteboard Extender for all REST services

Removed all Mobi API wrappers around RDF4J and switched to using the library directly for drastic performance improvements

Removed the OWL API based implementation of our Ontology API

Fixed an issue where blank nodes would be detached on upload changes if the IRI of the parent node changed

Fixed an issue where blank node IDs with hyphens would be affected when previewing the ontology data

Removed the outdated and underutilized Search tab

Fixed an issue where clicking on a search result in the Ontology Editor Search tab did not bring up a display of the entity

Fixed an issue where the Ontology Editor would bring users to the Visualization tab after uploading changes instead of the Changes tab

Fixed an issue where the page index of the list of Changes in the Ontology Editor and Shapes Editor did not reset when the changes were removed

(ENTERPRISE) Fixed an issue where certain screens with a lot of content were not scrolling properly

Fixed an issue where final blank nodes in RDF Lists were left dangling on delete and were not rendered properly in changes displays

Fixed an issue where the Load More buttons in the Ontology Editor and Shapes Editor merge previews did not render more content

Fixed an issue where failed upload changes processes in the Ontology Editor did not display any error messages

Fixed an issue where Mobi would not build or run on ARM based Machines

Fixed an issue where ontologies with mid to large size class hierarchies took a long time to open

Fixed an issue where IRIs of entities being created in the Ontology Editor could not be edited before being saved

Fixed an issue where the Schemes and Concepts tabs did not render immediately after SKOS was added to the imports closure

Fixed an issue where Merge Requests could not be accepted

Introduced a new bundled trust store that is used throughout the platform when establishing connections to outside sources, including importing ontologies from the web

Adjusted the setenv file to make setting the max and min memory usage more straightforward

Fixed an issue where un-encrypted configuration properties would be encrypted on restore even if auto-encryption was not enabled

Introduced new UI for editing the policy of any Record in the platform to centralize and simplify the functionality

Removed the UI for managing ontology access in favor of the new consolidated experience in the Catalog

Updated the backend SPARQL endpoints for querying ontologies to more closely align with the SPARQL 1.1 W3C specification and behave similarly to the overall SPARQL endpoint used for querying datasets and repositories

Fixed an issue where merges could be submitted even when there were no commits different between the source and target branches

Fixed an issue where entities with empty label values would prevent the ontology from being opened

Introduced a new policy for managing who can create a Shapes Graph Record

Improved user experience when a user’s access is limited within the editor

Adjusted the defaults set when creating new Shapes Graph Records such that managing, deleting, and modifying the master branch are limited to the creator of the Record while viewing and general modification are enabled for everyone

Fixed an issue where merges could be submitted even when there were no commits different between the source and target branches

Adjusted the class select when creating a class mapping to dynamically pull the list from the source ontology and improve rendering time

Adjusted process to map data into a Dataset to take into account the Dataset’s policy

Adjusted the Explore tool to take into account the Dataset’s policy and display appropriate feedback to the user

Improved user experience in the Query tool when the user is unauthorized to submit

Upgraded AngularJS version to 1.8.2

Upgraded Lodash version to 4.17.21

Fixed an issue where a publisher was not set on the MASTER branch when a new record was created

Updated the Ontology Visualization feature to enable customization of the graph by hiding and showing classes and ontologies in a collapsible side panel

Updated merge workflow to prevent merges into the same branch as the source

Added application setting to customize the default IRI for new ontologies

Fixed an issue where tabbing quickly after typing a character into the title field when creating a class would not update the IRI properly

Fixed an issue where circular subclass relationships were not properly represented in the class hierarchy

Fixed an issue where IRIs with an invalid extra "#" were accepted when editing an IRI

Introduced brand new beta module for editing SHACL shapes graphs with full versioning support. Behaves like the Ontology Editor with commits, branches, and tags to facilitate collaborative development. See Shapes Editor for more details

Updated merge workflow to prevent merges into the same branch as the source

Improved formatting of JSON-LD preview

Introduced default access policies for Dataset Records. Default access only allows the creator to delete and manage record metadata

Added a new section for managing Application Settings (see Application Settings)

Removed deprecated OWLAPI Ontology Implementation bundle

Added support for UPDATE queries to the mobi:query CLI command. Has the ability to perform a dry run of the query displaying what will change

Created an experimental REST interface for automatically translating source files into RDF with an extracted ontology. Currently supports XML, JSON, and CSV files

Added Basic Authentication support to REST endpoints

Introduced POST support to SPARQL Query endpoint in order to be more aligned with the SPARQL query endpoint specification

Extended Settings framework to add support for application wide system settings

The User Management module in the frontend code have been converted from AngularJS to Angular

Added a REST endpoint to retrieve a Provenance Activity by resource ID

Fixed an issue with system policies being evicted from the policy cache and updated API for easier loading of policies

Fixed an issue where dangling graphs would persist across backup/restores

Fixed system policy to restrict permissions to do everything from anyone with the admin role to only the admin user

Fixed an issue with Swagger docs not displaying list parameters correctly

Added the ability to filter Records based on keywords on the Record

Updated dct:modified date of Records based on committing to a branch, adding/removing branches, editing branch metadata, and editing Record metadata

Fixed an issue where the markdown editor help text would be cut off by side component

Introduced a beta feature for Ontology Visualization that will render up to 500 classes as nodes in a network graph, using the subclass relationships and object properties as edges. Uses the source Ontology and its imports

Added the source Ontology IRI when viewing an imported entity

Added owl:ReflexiveProperty and owl:IrreflexiveProperty support to properties

Introduced a notification to the user when Ontology state is updated on reopen of an Ontology

Added the ability to see the full ontology title on hover when importing an Ontology on the server

Updated query REST requests to stream results back to the frontend

Fixed an issue where failed imports did not truncate

Fixed an issue in the Search Tab where the warning message did not display for searches with more than 500 results

Fixed an issue when viewing an Entity’s history in a large Ontology would cause server slowdowns

Fixed an issue where a long imported Ontology IRI would extend past the confirm modal on deletion

Fixed an issue where a long imported Ontology IRI would extend past modal on addition

Fixed an issue where Classes from uncommitted changes on MASTER of source Ontologies appeared in Class selector

Updated the display of syntax error messages in the Query tab when submitting invalid SPARQL queries to be more human-readable

Fixed an issue where updated names wouldn’t immediately reflect the change in the side panel

Added handling for cleaning up User State when deleting a User

Encryption of sensitive information stored within service configuration files is now enabled by default

Changes to the master password used for service configuration encryption can be changed without having to restart the server

Swagger REST API documentation is available on every running server (see documentation here)

Enabled an experimental command-line feature for automatically translating source files into RDF with an extracted ontology. Currently supports XML, JSON, and CSV files

Added full Java and REST API framework for storing, updating, and retrieving preferences based on SHACL shape definitions (see documentation here)

Downgraded the jsonld-java library to fix issue where subjects could not be defined as a type of themselves

Fixed an issue where tags in an ontology were not included when exporting the record via the mobi:export-record command

Fixed an issue where icons did not load when not connected to the internet

Fixed an issue where logs viewed via the Karaf console did not display the Java Class names

Added ability to copy the full IRI of a commit when clicking on the hash in the commit info overlay

Fixed an issue where a new record "Overview" value would not immediately display after saving

Fixed an issue where In Progress Commits were not deleted from the repository when a Record was deleted

Changed calculation of differences on upload changes to deterministically skolemize blank nodes to provide a more accurate difference

Improved the performance of the See History view for individual entities in an ontology

Improved the performance of caching an retrieving ontology data

All ontology file uploads are automatically compressed before sending to the server for improved network performance

Changed wording of info messages to be more helpful

Combined the endpoints for uploading ontology JSON-LD and an ontology file such that the data and record metadata are both provided as form data parameters

Added new filter to hierarchies to remove deprecated entities (i.e. items annotated with owl:deprecated)

Added ability to upload zipped (.zip) and gzipped (.gzip) ontology files

Added ability to copy the full IRI of a commit when clicking on the hash in the commit info overlay

Added support for rendering SKOS-XL literal form as entity names in hierarchies and relationship labels

Added support for owl:TransitiveProperty and owl:SymmetricProperty in Property Characteristics block

Added ability to change the type of individuals in an ontology even if they do not contain the owl:NamedIndividual type

Added support for creating qualified restrictions on a class where the class is another restriction. An example in Manchester Syntax looks like this: isConnectedTo exactly 1 (Fin or Fuselage or Wing)

Added display of syntax errors to the upload changes overlay

Added prevention of trig upload which would cause unexpected behavior

Fixed an issue where the class hierarchy did not fully reset after a branch was created

Fixed an issue where uploading the same ontology as changes still created an In Progress Commit

Fixed an issue where uploading an ontology file with a non resolvable import threw an error

Fixed an issue where See History did not update when switching branches

Fixed an issue where a "IRI already exists" error would display for a split second when creating a new entity

Fixed an issue where long ontology names caused the second step of creating a Merge Request to horizontally scroll

Added ability to copy the full IRI of a commit when clicking on the hash in the commit info overlay

Fixed an issue where full mapping definition was not returned when downloading a mapping

Fixed an issue where blank nodes defined as known classes caused errors in the Explore tool when viewing the class list and list of instances

New Preferences tab that will populate with User Preference SHACL definitions from the repository (see documentation here)

Confirm password input in Password tab was converted to a single field with the ability to unmask the value for verification

Confirm password input in Reset Password overlay and Create User overlay was converted to a single field with the ability to unmask the value for verification

Updated RDF4J version to 2.5.5

New support for configuring a master encryption password used to protect plaintext property values stored within service configuration files

The Login and Home modules in the frontend code have been converted from AngularJS to Angular

Improved memory usage when iterating through large sets of RDF statements in the backend

Fixed an issue where users would see a "Problem Getting States" error when logging in

Added security policy for Dataset creation.

Changed the display of commit differences to load incrementally and display the calculated names of each entity instead of the local name of the IRI

Added support for owl:versionInfo and owl:versionIRI

Added more intelligent identification of the RDF format of a file when uploading ontologies

Added display of syntax errors to the ontology upload snackbar

Changed the display of commit differences to load incrementally and display the calculated names of each entity instead of the local name of the IRI

Improved performance of the Concepts hierarchy by reworking a filter used within the Annotation, Data Property, and Object Property sections

Improved performance of the query to fetch entity names within the ontology leading to faster open times

Fixed an issue where the endpoint for fetching the list of branches had no default sort value

Fixed an issue where search text was not properly highlighting matches within the list of ontologies

Fixed an issue where modals for creating entities within an ontology accepted invalid characters at the beginning of the IRI

Fixed an issue where modals for editing an IRI accepted invalid characters

Fixed an issue where editing an owl:subPropertyOf axiom would cause Concept tab to lose identification of imported concepts

Fixed an issue where the text of the selected data or object property in the "Add Datatype Property Value" modal would extend past the edge of the modal

Fixed an issue where changing the language of a skos:prefLabel value on a Concept Scheme or Concept would cause an "Invalid JSON-LD" error

Changed the display of commit differences to load incrementally and display the calculated names of each entity instead of the local name of the IRI

Fixed an issue where ontology IRIs would extend past their cards in the first step of creating a merge request on Firefox

Changed the display of commit differences to load incrementally

Fixed an issue where the selected property would not load when editing an existing property mapping

Introduced new policy to control who can create Datasets within the system (available in the User Management module)

Refactored Query submodule to re-skin YASGUI for Mobi

Introduced CONSTRUCT query support to both frontend Query editor and backend endpoints

Changed JSON response for SELECT SPARQL queries to conform to the W3C specification

Introduced utility Java class to support converting SELECT SPARQL query results to JSON, CSV, and TSV

Added scaffolding that includes new packages and files to help facilitate the switch from angularJS to angular

Application now defaults to using the Repository Implementation for the Ontology API

New support for configurable token duration for account logins

Added a line in the config specifying the default port for Mobi.

Fixed an issue where the username of the logged in user was replaced with "…​" if it was to long to fit in the navbar instead of truncating.

New "Active Entity" filter in each of the ontology tabs that will optionally filter out imported entities from the hierarchy view

Refactored the Ontology Editor to store only required data for rendering in the web application rather than the entire Ontology RDF

New backend endpoint to retrieve full RDF for a specified entity along with it’s transitively attached blank nodes

Modified the behavior on click of an entity in the hierarchy so that it retrieves the entity RDF from the new GET entity endpoint.

Modified the GET ontology-stuff endpoint to include a map of entity IRIs in the imports closure to the values of properties used in calculating the display name

Removed the GET ontology calls from the frontend to improve performance, especially when opening large ontologies

Modified the GET commit endpoint to only retrieve commit metadata instead of full list of differences

Modified the GET differences endpoint to make the target commit ID optional

Improved performance of opening an Ontology

Improved performance of switching branches

Improved performance of retrieving ontology data after a new commit

Improved performance of uploading an Ontology

Improved the Ontology Editor module to support extremely large ontologies with hundreds of thousands of entities

Added a limit to the amount of data displayed in the Preview block to improve performance of large ontologies

Fixed an issue where the ontology upload modal would stop appearing if the user accidentally clicked off of the ontology upload modal

Fixed an issue where imported ontologies without an Ontology IRI defined showed up blank in the Imports block of the Project tab

Fixed an issue where a long title for an ontology would expand the row on the Ontology List page too far horizontally and push the page content to the right along with it

Fixed an issue where a modal would close if you clicked on something in the modal, held the click, and released outside of the modal

Fixed an issue where application would run out of memory when merging large ontologies with merge conflicts

Fixed an issue where incorrect blank nodes were generated from certain Manchester Syntax strings

Fixed an issue where the graph in the Catalog Commit table overlapped with the Creator column

Switched certain backend services to OSGi DS annotations instead of deprecated BND annotations

Switched backup/restore methods to copy and replace all configuration files except for server specific files

Switched backend library for generated JSON from net.sf to Jackson for improved performance

New support for milliseconds for all stored xsd:dateTime values

New backend support for users external to Mobi

New support for committing mapped data to an ontology using the mobi:transform command

Refactored how tokens are generated and verified in the backend

New policy for controlling who can run a SPARQL query against the system repository

Fixed an issue with thread allocation in OWL API Ontology API implementation.

Fixed an issue where passwords with special characters could not be saved.

Fixed an issue where usernames were case sensitive.

Fixed an issue where restoring an older version of Mobi overwrote the version of the deployed bundles on a clean start

New implementation of the backend Ontology API that allows for the uploading and opening of .OBO ontologies

New implementation of the backend Ontology API that uses a repository for caching and querying

New backend endpoint for retrieving the list of ontology IRIs in the imports closure

Improved performance of opening and switching branches of large ontologies

Improved performance of displaying a commit’s changes for large ontologies

Improved performance of calculating conflicts between commits with a large number of changes

Improved performance of the Changes when displaying a large number of changes

Improved performance of uploading a large number of changes to an ontology

Default the commit dropdown in the See History view to the latest commit

New support for creating a branch when viewing a specific commit

New support for displaying values of the SKOS-XL literalForm property as the display name for SKOS-XL Labels

Reworked Concepts and Schemes tab to show all data and object properties

Fixed an issue where searches of large ontologies crashed the browser

Fixed an issue where imported concepts were not displayed underneath their parent concept schemes in the Schemes tab

Fixed an issue where a changed entity in a hierarchy would not update when a commit was made

Fixed broken "go to" functionality in the Object Property section of the Individuals tab

Fixed bug where JavaScript console errors appeared when closing an ontology with the new entity snackbar visible

Fixed an issue where updating record metadata would remove all other entities within the Record’s named graph (such as linked ontologies for Dataset Records)

Fixed an issue where commits would not display for a branch of a VersionedRDFRecord when switching which branch was open

New backend support for editing comments on a merge request

New backend support for querying specific named graphs within a dataset using a Dataset Repository Connection

Fixed an issue where a SPARQL query in the form of CONSTRUCT WHERE {…​} against a Dataset would not be rewritten properly

Fixed an issue where the list of groups would not update after one was created

Fixed an issue where the table of members of a group would not update after removing a member

Upgraded underlying RDF4J version to 2.4.3.

Upgraded underlying AngularJS version to 1.7.7.

Added support for SPARQL and HTTP backing repositories

Added documentation on how to use IRIs with URL encoded symbols in Mobi CLI.

Restructured web files to reduce nested directories and have a consistent naming scheme.

Made improvements to frontend routing so redirects to the login page are more intuitive.

Refactored the return structure of the users and groups REST endpoints to improve performance and correctly encode strings.

Fixed an issues with text overflow in several views.

Fixed an issue where backups made with the Mobi CLI on Windows machines would not restore correctly on Unix or Linux machines.

New support for filtering hierarchies based on search text. Matches any annotations used for calculating the display name along with the local name.

New support for viewing entity change history. Displays the list of commits where an entity was changed and what the entity looked like at each change.

New support for opening a newly created entity via a snackbar and auto scrolling to its location in the list.

New support for auto scrolling to an entity in the list when clicking "Go To" from the search tab.

New support for a much larger list of language tags when creating annotations.

In the Ontology API, refactored retrieval of hierarchical relationships to use the Ontology object rather than an in-memory repository.

Refactored Ontology API to remove unused classes.

Changed the processing of hierarchical relationships in the Ontology REST and frontend for faster processing.

Fixed an issue where the list of entities in the search tab where not sorted.

New support for opening a record in its respective module from the catalog.

New support for adding a Markdown description to records you have the permission to manage.

New support for editing the title, description, and keywords of records you have the permission to manage.

Developed new look and feel for the Catalog UI.

Updated UI components to be consistent with the rest of the application.

Fixed an issue where Merge Requests were not properly deleted if they had reply comments.

Fixed an issue where invalid dataset IRIs spaces were accepted.

Upgraded underlying RDF4J version to 2.4.1.

Modified the default repository indexing strategy to include named graph indexing by default. This should increase performance considerably on larger repository sizes.

Added support for automatically compressing all web service responses.

Added support for full system backup and restore through the Mobi CLI.

Added support to the ORM framework for removing values of a functional property for an ORM Object.

Refreshed User Management modal UI design to be more consistent with the rest of the application.

Fixed an issue causing performance degradation when committing large sets of data to Versioned RDF Records.

New support for creating tags within an ontology. Tags are persistent identifiers for specific commits.

New support for opening specific commits and tags. These commits and tags are opened in read-only mode.

Added support for querying ontology data via web services and optionally including imported ontologies.

Added support for editing the types of owl:NamedIndividuals.

Added support for admins to bypass access control for ontology records.

Refreshed the UI display for the Search and Changes tabs to be more consistent with the rest of the application.

Added support for automatically updating the ontology list when a set of uploads completes.

Reworked the ontology import selector to enable search and a better ontology selection experience.

Fixed an issue where the ontology list was not properly loaded when filter queries were abnormally slow.

Fixed an issue where ontology record was corrupted if the client connection was lost during upload.

Fixed an issue preventing opening of an ontology that imports another ontology that has an identical ontology and version IRI.

Fixed performance issues when rendering large entity hierarchies.

Fixed an issue causing display of double scrollbars in some ontology editor panels.

Fixed an issue where circular subclass relationships prevent ontology opening.

Fixed an issue improperly displaying a success toast after closing access control management with no changes.

Fixed an issue that improperly opened a modal when ontology upload is cancelled.

New support added for creating and deleting comments and replies in merge requests to facilitate discussions.

Added support for editing open merge requests.

Added support for removing the source branch upon merge.

Added support for committing mapped ontology entities to a specific branch rather than only the master branch.

Added support for removing data from the mapping results that already exists on the target branch during ontology mapping.

Added support for calculating differences between mapping results and data on the target branch during ontology mapping.

Refreshed modal UI design to be more consistent with the rest of the application.

Reworked the ontology selector to enable search and a better ontology selection experience.

Fixed an issue with improperly processing empty rows in a CSV file in certain situations.

Fixed an issue causing filename to improperly display when changing file selection in the Mapping Tool.

Added better support for rendering branches in a Versioned RDF Record view.

Reworked the ontology selector to enable search and a better ontology selection experience.

Redesigned look and feel for the Mobi web application including new Home Page and Ontology Editor designs

Refactored conflict checking to provide better support for a variety of merge scenarios

Upgraded underlying Apache Karaf version to 4.2.0

Developed a new extensible framework for managing catalog records including record type specific implementations for export, delete, and create

Refactored file naming and storage strategy for Mobi Binary Store

Refactored policy services to use the Mobi Binary Store for policy storage and retrieval

Added support for managing access control for ontology records. Support includes user and group control for view, delete, record modification, and master branch modification.

Added support for configuring default location for the Mobi Binary Store

Added web service support for comparing differences between two commits on a Versioned RDF Record

Added service support for sending email notifications

Fixed an issue where passwords do not match error was not being properly cleared

Fixed an issue where merging duplicate changes from two branches sometimes resulted in statements remaining that should have been deleted

Properly implemented backend paging for the ontology list

Redesigned entity creation in the ontology editor. Creation now happens through the editor button stack instead of within each individual tab.

Prioritize rendering of english labels in hierarchy views

Added support for horizontal scrolling in hierarchy views

Added support for drag-and-drop upload of ontologies

Added web service support for querying ontology versions with SPARQL

Fixed an issue where adding and removing an import did not properly clean up the user’s in-progress commit

Fixed an issue with an incorrect error message when uploading an empty ontology

Fixed an issue with commit table rendering of long user names

Fixed an issue where uploading ontologies with missing entities on restrictions resulted in Error Entities being displayed

Fixed an issue where anonymous ontologies did not properly show the commit history

Added support for assigning merge requests to users

Added support for accepting merge requests

Added support for resolving merge conflicts within a merge request. Request still available for review after conflict resolution.

Added support for mapping the same property to multiple columns of a tabular file

Added support for Annotation Properties in property mappings

Added support for selecting datatypes in property mappings

Added support for selecting languages in property mappings

Added support for committing mapping results to an ontology record

Fixed an issue when mapping ontology properties for blank cells