Merge branch 'fix-queued-workflow-delete' of https://github.com/obasekiosa/cwlviewer into fix-queued-workflow-delete

Author: obasekiosa

.github/workflows/ci-build.yml

@@ -0,0 +1,54 @@
+name: CWL Viewer Build
+
+on:
+  push:
+    branches:
+      - main
+  pull_request:
+    branches:
+      - main
+
+jobs:
+  build:
+    runs-on: ubuntu-20.04
+
+    steps:
+      - uses: actions/[email protected]
+        with:
+          ref: ${{ github.event.pull_request.head.ref }}
+          repository: ${{ github.event.pull_request.head.repo.full_name }}
+
+      - name: MongoDB in GitHub Actions
+        uses: supercharge/[email protected]
+
+      - name: Restore dependency cache
+        uses: actions/[email protected]
+        with:
+          path: ~/.m2/repository
+          key: ${{ runner.os }}-maven-${{ hashFiles('**/pom.xml') }}
+          restore-keys: |
+            ${{ runner.os }}-maven-
+
+      - name: Set up Java
+        uses: actions/setup-java@v2
+        with:
+          distribution: 'adopt'
+          java-version: '8'
+
+      - name: Install system packages
+        run: |
+          sudo apt-get -qq update
+          sudo apt-get install graphviz python3-pip
+          sudo pip install cwltool
+
+      - name: Build and test with Maven
+        run: |
+          ./mvnw test -B
+
+      - name: Coverage report
+        run: |
+          mvn prepare-package -DskipTests=true
+          mvn cobertura:cobertura coveralls:report --no-transfer-progress -DrepoToken=$COVERALLS_SECRET -DpullRequest=${{ github.event.number }}
+        env:
+          CI_NAME: github
+          COVERALLS_SECRET: ${{ secrets.GITHUB_TOKEN }}

.travis.yml

@@ -2,7 +2,7 @@
 
 This is a [Spring Boot](http://projects.spring.io/spring-boot/) MVC application which fetches [Common Workflow Language](http://www.commonwl.org/) files from a Github repository and creates a page for it detailing the main workflow and its inputs, outputs and steps.
 
-[![Build Status](https://travis-ci.org/common-workflow-language/cwlviewer.svg?branch=master)](https://travis-ci.org/common-workflow-language/cwlviewer) [![Coverage Status](https://coveralls.io/repos/github/common-workflow-language/cwlviewer/badge.svg)](https://coveralls.io/github/common-workflow-language/cwlviewer) [![Gitter](https://img.shields.io/gitter/room/gitterHQ/gitter.svg)](https://gitter.im/common-workflow-language/cwlviewer?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge) [![](https://images.microbadger.com/badges/image/commonworkflowlanguage/cwlviewer.svg)](https://microbadger.com/images/commonworkflowlanguage/cwlviewer "MicroBadger commonworkflowlanguage/cwlviewer") [![Docker image commonworkflowlanguage/cwlviewer](https://images.microbadger.com/badges/version/commonworkflowlanguage/cwlviewer.svg)](https://hub.docker.com/r/commonworkflowlanguage/cwlviewer/ "Docker Hub commonworkflowlanguage/cwlviewer")
+[![Build Status](https://github.com/common-workflow-language/cwlviewer/workflows/CWL%20Viewer%20Build/badge.svg?branch=main)](https://github.com/common-workflow-language/cwlviewer/actions?query=workflow%3A%22CWL%20Viewer%20Build%22) [![Coverage Status](https://coveralls.io/repos/github/common-workflow-language/cwlviewer/badge.svg)](https://coveralls.io/github/common-workflow-language/cwlviewer) [![Gitter](https://img.shields.io/gitter/room/gitterHQ/gitter.svg)](https://gitter.im/common-workflow-language/cwlviewer?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge) [![](https://images.microbadger.com/badges/image/commonworkflowlanguage/cwlviewer.svg)](https://microbadger.com/images/commonworkflowlanguage/cwlviewer "MicroBadger commonworkflowlanguage/cwlviewer") [![Docker image commonworkflowlanguage/cwlviewer](https://images.microbadger.com/badges/version/commonworkflowlanguage/cwlviewer.svg)](https://hub.docker.com/r/commonworkflowlanguage/cwlviewer/ "Docker Hub commonworkflowlanguage/cwlviewer")
 [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.823534.svg)](https://doi.org/10.5281/zenodo.823534)
 
 
@@ -166,10 +166,12 @@ look like a commit ID. Note that this might break previous permalinks.
 
 # Documentation
 
-2017 Poster https://f1000research.com/posters/6-1075
+2017 Poster https://doi.org/10.7490/f1000research.1114375.1
 
 2017 Video overview https://youtu.be/_yjhVTmvxLU
 
+2017 Technical Report https://doi.org/10.5281/zenodo.823295
+
 # Thanks
 
 Developers and [contributors](https://github.com/common-workflow-language/cwlviewer/graphs/contributors) include:

README.md

@@ -23,10 +23,10 @@
 		<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
 		<project.reporting.outputEncoding>UTF-8</project.reporting.outputEncoding>
 		<java.version>1.8</java.version>
-		<jena.version>3.16.0</jena.version>
+		<jena.version>3.15.0</jena.version>
 		<!-- BEGIN should correspond to https://repo1.maven.org/maven2/org/apache/jena/jena/3.9.0/jena-3.9.0.pom -->
-		<ver.jsonldjava>0.13.2</ver.jsonldjava>
-		<ver.jackson>2.11.3</ver.jackson>
+		<ver.jsonldjava>0.13.0</ver.jsonldjava>
+		<ver.jackson>2.11.1</ver.jackson>
 		<!-- END -->
 	</properties>
 
@@ -70,7 +70,7 @@
 		<dependency>
 			<groupId>org.yaml</groupId>
 			<artifactId>snakeyaml</artifactId>
-			<version>1.27</version>
+			<version>1.26</version>
 		</dependency>
 		<dependency>
 			<groupId>com.github.jabbalaci</groupId>
@@ -106,7 +106,7 @@
 		<dependency>
 			<groupId>org.eclipse.jgit</groupId>
 			<artifactId>org.eclipse.jgit</artifactId>
-			<version>5.9.0.202009080501-r</version>
+			<version>5.8.0.202006091008-r</version>
 		</dependency>
 		<dependency>
 			<groupId>org.mockito</groupId>
@@ -132,10 +132,10 @@
 
 	<profiles>
 		<profile>
-			<id>travis</id>
+			<id>github</id>
 			<activation>
 				<property>
-					<name>env.TRAVIS</name>
+					<name>env.CI</name>
 					<value>true</value>
 				</property>
 			</activation>

pom.xml

@@ -47,7 +47,7 @@ <h1>About</h1>
                 tooling.</p>
 
             <p>Cite as: <code><a href="https://doi.org/10.7490/f1000research.1114375.1">https://doi.org/10.7490/f1000research.1114375.1</a></code></p>
-            <p>Technical Report: <a href="https://doi.org/10.5281/zenodo.848163">https://doi.org/10.5281/zenodo.848163</a></p>
+            <p>Technical Report: <a href="https://doi.org/10.5281/zenodo.823295">https://doi.org/10.5281/zenodo.823295</a></p>
 
             <p>CWL Viewer also won the <a href="https://f1000research.com/">F1000Research</a> Best Poster 
             	<a href="https://bioexcel.eu/poster-award-for-cwlviewer/">Award</a> at