Adding the webinar

.travis.yml

@@ -2,15 +2,15 @@
 ## Go to: https://travis-ci.org/EBISPOT for details
 language: java
 jdk:
-  - oraclejdk8
+  - openjdk8
 
 before_script:
   - mkdir -p bin
   - export PATH=$PATH:$PWD/bin
-  - wget http://build.berkeleybop.org/userContent/owltools/owltools -O bin/owltools
-  - wget http://build.berkeleybop.org/userContent/owltools/ontology-release-runner -O bin/ontology-release-runner
-  - wget http://build.berkeleybop.org/userContent/owltools/owltools-runner-all.jar -O bin/owltools-runner-all.jar
-  - wget http://build.berkeleybop.org/userContent/owltools/owltools-oort-all.jar -O bin/owltools-oort-all.jar
+  - export OWLTOOLS=2020-04-06
+  - wget https://github.com/owlcollab/owltools/releases/download/${OWLTOOLS}/owltools -O bin/owltools
+  - wget https://github.com/owlcollab/owltools/releases/download/${OWLTOOLS}/ontology-release-runner -O bin/ontology-release-runner
+  - wget https://github.com/owlcollab/owltools/releases/download/${OWLTOOLS}/owltools-oort-all.jar -O bin/owltools-oort-all.jar
   - wget https://raw.githubusercontent.com/ontodev/robot/master/bin/robot -O bin/robot
   - wget https://github.com/ontodev/robot/releases/download/v1.2.0/robot.jar -O bin/robot.jar
   - wget --no-check-certificate https://raw.githubusercontent.com/cmungall/pattern2owl/master/apply-pattern.py -O bin/apply-pattern.py

README.md

@@ -10,13 +10,15 @@ Table of Contents
          * [Stable release versions](#stable-release-versions)
          * [Editors' version](#editors-version)
       * [Contact](#contact)
+      * [DUO users](#duo---users)
    * [DUO - Full documentation](#duo---full-documentation)
       * [What is DUO?](#what-is-duo-1)
       * [How did DUO come about?](#how-did-duo-come-about)
       * [Evolution of DUO](#evolution-of-duo)
       * [Examples of use](#examples-of-use)
          * [Tagging with ‘data use restrictions/conditions’](#tagging-with-data-use-restrictionsconditions)
          * [Powering dataset access screening queries](#powering-dataset-access-screening-queries)
+         * [DUO Webinar](#duo-webinar)
       * [Automated data access requests](#automated-data-access-requests)
          * [How does querying work when using DUO?](#how-does-querying-work-when-using-duo)
          * [Research Purpose : Data Use Limitation Matching](#research-purpose--data-use-limitation-matching)
@@ -64,6 +66,14 @@ Editors of this ontology should use the edit version, [src/ontology/duo-edit.owl
 ## Contact
 Please use this GitHub repository's [Issue tracker](https://github.com/EBISPOT/duo/issues) to request new terms/classes or report errors or specific concerns related to the ontology.
 
+## DUO - users
+Several projects have now implemented DUO in production pipelines:
+- the Broad Institute’s Data Use Oversight System, [DUOS](https://duos.broadinstitute.org/#/home)
+- the European Genome-phenome Archive (EGA). See [here](https://ega-archive.org/datasets/EGAD00001000002) for example.
+- the Data Information System, [DAISY](https://github.com/elixir-luxembourg/daisy) 
+
+[Contact](#contact) us to tell us about your implementation!
+
 # DUO - Full documentation
 
 ## What is DUO?
@@ -117,6 +127,11 @@ The following figure illustrates how DUO terms can be used to represent data use
 
 ![alt tag](https://github.com/EBISPOT/DUO/blob/master/doc/figs/DUO_matching.png "DUO matching")
 
+### DUO Webinar
+[Watch a webinar here](https://www.youtube.com/watch?v=8ZyU34xpi4M&t=1s) with an explanation of the DUO as well as several global users describing how they integrate it into their systems.
+
+[![](http://img.youtube.com/vi/8ZyU34xpi4M/0.jpg)](http://www.youtube.com/watch?v=8ZyU34xpi4M "")
+
 ## Automated data access requests
 In the long term, we envision DUO coupled with matching algorithms such as DUOS to empower services that automatically determine if a user’s research purpose is compatible with data use restrictions on datasets and in turn determine whether to give a researcher access to the data. 
 
@@ -212,6 +227,7 @@ J. Patrick Woolley, Emily Kirby, Josh Leslie, Francis Jeanson, Moran N. Cabili,
 - Melanie Courtot (EMBL-EBI)  
 - Stacey Donnelly (GA4GH/Broad)  
 - Stephanie Dyke (Mc Gill)  
+- Melissa Haendel (OHSU)
 - Francis Jeanson (IAMOPEN)
 - Giselle Kerry (EMBL-EBI, EGA)  
 - Melissa Konopko (Wellcome Sanger Institute)  
@@ -220,11 +236,13 @@ J. Patrick Woolley, Emily Kirby, Josh Leslie, Francis Jeanson, Moran N. Cabili,
 - Greeshma Neglur (NCI Commons/U chicago)  
 - Laura Paglione (Spherical Cow)
 - Ravi Pandya (Microsoft Research)
-- Anthony Philippakis (Broad Institute of MIT and Harvard)  
+- Anthony Philippakis (Broad Institute of MIT and Harvard) 
+- Jordi Rambla (Centre for Genomic Regulation, EGA)
 - Greg Rushton (Broad Institute of MIT and Harvard)
 - Kathy Reinold (Broad Institute of MIT and Harvard)
 - Laura Rodriguez (NHGRI)  
 - Andrea Saltzman (Broad)  
+- Heidi Sofia (NIH)
 - Dylan Spalding (EMBL-EBI, EGA)  
 - Anne-Marie Tasse (McGill University)
 - Adrian Thorogood (McGill University)

doc/release_notes.md

@@ -0,0 +1,19 @@
+
+# DUO - Release notes
+
+## v2020-02-03
+
+This release addresses several outstanding tickets:
+
+- A flat file (CSV) version of DUO is now being created at release time. This file is available from http://purl.obolibrary.org/obo/duo/duo.csv Despite being versioned this file does not include the version explicitly: a ticket has been created to do this in the next release, https://github.com/EBISPOT/DUO/issues/40
+- HMB has been moved to be a child of GRU and sibling of GRU-CC : HMB definition doesn't include clinical care and the hierarchy was therefore updated to reflect this.
+- The term 'consent code' has been relabeled as 'data use limitation'. To optimise search the term 'consent code' has been retained as an alternative term.
+- The term 'consent code primary category' and 'secondary category' have been deprecated: they were not used to tag datasets but instead as patterns for DUO codes capture. Those patterns are institue specific and would be better reflected by Schemablocks constraints specific to a repository.
+
+
+Minnor fixes
+- Addition of xsd:datatype to text field, as per https://github.com/EBISPOT/DUO/issues/33. Reported and fixed by @haoyuanli
+- Consistency of ID annotation properties, as per https://github.com/EBISPOT/DUO/issues/32. Reported by @haoyuanli
+- typo has been ported back to IAO, https://github.com/EBISPOT/DUO/issues/24
+
+## no release notes for older versions