CEDAR Release 1.7.0

We are pleased to announce release 1.7 of the CEDAR Workbench.

Repository Submission

We significantly enhanced CEDAR's ability to submit metadata to NCBI's BioSample and SRA repositories. The main focus was on supporting submission of AIRR-based metadata. Implementing tasks here.

Attribute/Value Field Type

We add a new attribute/value field type that allows Metadata Editor users to create new fields. Implementing tasks here.

All tasks completed for the 1.7 release series can be found here.

CEDAR Release 1.6.3

This is a patch release that fixes a bug relating to the handling of older system resources that are not named using the current domain root and corrects a validation shortcoming when dealing with link type fields.

CEDAR Release 1.6.2

We are pleased to announce release 1.6.2 of the CEDAR Workbench.

Spreadsheets

We further enhanced CEDAR's support for spreadsheets to improve the display and acquisition of table-based metadata. Implementing tasks here.

Controlled Term Handling

In collaboration with the BioPortal team we enhanced CEDAR's ability to deal with non-hierarchical ontologies. Implementing tasks here.

Usability Issues and Bugs

We addressed a number of front end usability issues and bugs in this release. Implementing tasks here.

AIRR Submission Video

We extended or CEDAR instructional videos library with an instructional video to how to submit AIRR-based experimental data to BioSample and SRA repositories using CEDAR. The video can be seen here. Implementing tasks here.

Java 9 Support

We updated all CEDAR Java-based components to work with Java 9. Implementing tasks here.

All tasks completed for the 1.6 release series can be found here.

CEDAR Release 1.5.0

We are pleased to announce release 1.5.0 of the CEDAR Workbench.

Repository Model Update and Validation

We have made minor updates to our repository model. The latest model document can be found here; Appendix C in this document contains the updates to the model made since the last release. We also made significant model validation extensions to help detect and fix model inconsistencies. Implementing tasks here.

Usability Issues and Bugs

We addressed a number of front end usability issues and bugs in this release. Implementing tasks here.

CEDAR Videos

We produced the first of an array of CEDAR instructional videos. Videos can be seen here. Implementing tasks here.

Docker Updates

We simplified the Docker installation process and performed various tasks to harden the Docker deployment. Implementing tasks here.

Domain Name Change

We changed the domain name of the main CEDAR server from metadatacenter.net to metadatacenter.org.

All tasks completed for the 1.5.0 release can be found here.

CEDAR Release 1.4.2

We are pleased to announce release 1.4.2 of the CEDAR Workbench.

This patch release mainly provides some usability enhancements and bug fixes.

A list of the tasks addressed in this release can be found here.

CEDAR Release 1.4.0

We are pleased to announce release 1.4.0 of the CEDAR Workbench.

Metadata Submission

We completed prototype metadata submission pipelines for the AIRR, ImmPort, and LINCS groups. Implementing tasks here.

User Notification

We implemented a user notification service. Initially this service will notify users of submission status but we plan to use it for an array of different user notification services. Implementing tasks here.

Spreadsheets

We have enhanced our spreadsheet functionality and addressed a number of usability issues in this release. Implementing tasks here.

All tasks completed for the 1.4.0 release can be found here.

CEDAR Release 1.3.1

We are pleased to announce release 1.3.1 of the CEDAR Workbench.

Docker

CEDAR is now available as a fully Docker-based system. The Docker installation includes all CEDAR features. Implementing tasks here.

Spreadsheets

CEDAR now supports spreadsheet-based display of multi-instance fields and elements. A rich array of standard spreadsheet functions are supported. Implementing tasks here.

Metadata Submission

Continued work on submission pipelines with ImmPort, AIRR and LINCS groups. We plan to have initial submission pipelines in place for all three groups in the 1.4 release. Implementing tasks here.

Schema.org

Performed further work on publishing CEDAR pages marked up with Schema.org terms.
Implementing tasks here.

Default and Hidden Fields

CEDAR now supports default values and hidden values for fields in forms. Implementing tasks here, and here.

All tasks completed for the 1.3.1 release can be found here.

CEDAR Release 1.2.0

We are pleased to announce release 1.2.0 of the CEDAR Workbench.

Docker

This interim release brings CEDAR one step closer to full Dockerization. All CEDAR components have now been configured to be deployable with Docker. The next major release of CEDAR will be be deployed as a full Docker-based system. Implementing tasks here.

Schema.org

We have begin the process of generating Schema.org-annotated HTML from CEDAR metadata. This work will enable users to publish their metadata with Schema.org markup for indexing by major search engines. Implementing tasks here.

Validation

We have improved the performance of CEDAR artifact validation. Implementing tasks here.

Hardening

We have increased test coverage and improved the performance of tests. Implementing tasks here.

All tasks completed for the 1.2.0 release can be found here.

CEDAR Release 1.1.0

We are pleased to announce release 1.1.0 of the CEDAR Workbench.

New Features and Enhancements

Property Annotations

• CEDAR now allows metadata templates to be annotated with property URIs from BioPortal. These annotations allow CEDAR metadata templates to express complex relationships between template components. As with class annotations, these annotations are carried through to metadata instances thus providing the ability to generate fully linked RDF graphs for these instances. Implementing tasks here.

Template Model Enhancements

• A significant amount of work was performed to harden the CEDAR template model and to enhance it to support property annotations. The model document was updated to reflect these enhancements. Implementing tasks here.

REST Validation Endpoint

• REST endpoints were developed to allow users to validate model artifacts. Implementing task here.

URI Field Type

• The Workbench now includes a new Link field type that allows users to enter URIs of resources that may be external to CEDAR. Implementing task here.

External Validation of Metadata

• CEDAR's submission server was enhanced to support metadata validation for LINCS submissions. Implementing tasks here.

Front End Usability Enhancements

• A number of front end usability enhancements and bug fixes were performed. Implementing tasks here.

Docker

• Several CEDAR components were containerized using Docker. Release 1.2.0 will include a complete Docker-based deployment, which will dramatically ease future cloud deployment of CEDAR and will allow third parties to deploy their own CEDAR instances. Implementing tasks here.

All tasks completed for the 1.1.0 release can be found here.

CEDAR Release 1.0.6

We are pleased to announce release 1.0.6 of the CEDAR Workbench.

Major new features since the last 1.0.0 release include:

Template and Element Type Annotations

Template creators can now add one or more types to templates and elements. These types can be selected from BioPortal.

Nested Element Naming

Elements nested inside templates or other elements can now be give user-friendly names.

RDF Representation of Template Instances

CEDAR's REST APIs can now return an RDF representation of template instances.

Simplified JSON-LD-less Representation of Template Instances

CEDAR's REST APIs can now return a simplified JSON representation of template instances with all JSON-LD markup removed.

Administrative User

To support administrative tasks CEDAR now supports an administrative user.

For more information about the general capabilities of the CEDAR system, see our orientation.