removed taverna-perspective-biocatalogue Now maintained outside ASF at https://github.com/taverna-extras/taverna-perspective-biocatalogue
Because: * Unclear license/attribution for several resources * not fully updated for Taverna Workbench 3.x (e.g. missing OSGi service declarations, not using SCUFL2 model) Project: http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/repo Commit: http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/commit/52817a33 Tree: http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/tree/52817a33 Diff: http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/diff/52817a33 Branch: refs/heads/master Commit: 52817a33530779627de441d77155b19c54d9a93d Parents: 164abb3 Author: Stian Soiland-Reyes <[email protected]> Authored: Thu Sep 22 00:29:33 2016 +0100 Committer: Stian Soiland-Reyes <[email protected]> Committed: Thu Sep 22 00:29:33 2016 +0100 ---------------------------------------------------------------------- NOTICE | 38 - pom.xml | 4 - .../lib/core-renderer.jar | Bin 1079323 -> 0 bytes taverna-perspective-biocatalogue/pom.xml | 206 - .../move_scomp_results_into_project.bat | 47 - .../scomp_compile_from_web.bat | 27 - .../scomp_compile_from_web_to_jar.bat | 27 - .../doc/BioCatalogue Plugin Documentation.odt | Bin 77721 -> 0 bytes .../src/main/help/Index-TOC-Map-Additions.txt | 20 - .../main/help/biocatalogue-plugin-features.html | 128 - .../main/help/biocatalogue-plugin-feedback.html | 43 - .../src/main/help/biocatalogue-plugin.html | 69 - .../model/BioCataloguePluginConstants.java | 93 - .../model/HTTPMethodInterpreter.java | 62 - .../model/LoadingExpandedResource.java | 57 - .../biocatalogue/model/LoadingResource.java | 55 - .../apache/taverna/biocatalogue/model/Pair.java | 46 - .../taverna/biocatalogue/model/Resource.java | 522 --- .../biocatalogue/model/ResourceManager.java | 342 -- .../model/ResourcePreviewContent.java | 54 - .../model/SoapOperationIdentity.java | 93 - .../model/SoapOperationPortIdentity.java | 42 - .../model/SoapProcessorIdentity.java | 43 - .../biocatalogue/model/SoapServiceIdentity.java | 61 - .../apache/taverna/biocatalogue/model/Tag.java | 234 -- .../apache/taverna/biocatalogue/model/Util.java | 809 ---- .../BeanForPOSTToFilteredIndex.java | 28 - .../model/connectivity/BeansForJSONLiteAPI.java | 100 - .../connectivity/BioCatalogueAPIRequest.java | 63 - .../model/connectivity/BioCatalogueClient.java | 801 ---- .../model/connectivity/ServerResponse.java | 56 - .../connectivity/ServerResponseStream.java | 46 - .../biocatalogue/model/search/SearchEngine.java | 237 -- .../model/search/SearchInstance.java | 506 --- .../model/search/SearchInstanceTracker.java | 73 - .../model/search/SearchOptions.java | 86 - .../model/search/SearchResults.java | 230 -- .../model/search/ServiceFilteringSettings.java | 200 - .../biocatalogue/test/AnnotationBean.java | 68 - .../biocatalogue/test/DrawDefaultIconTest.java | 54 - .../taverna/biocatalogue/test/GSONTest.java | 35 - .../test/GSONTest_exportingJSON.java | 46 - .../test/GSONTest_forSoapOperationsIndex.java | 43 - .../biocatalogue/test/JWaitDialogTest.java | 52 - .../biocatalogue/test/LinkedListEqualsTest.java | 41 - .../biocatalogue/test/TestAPICaller.java | 257 -- .../test/TestDoubleUsageOfSameSwingElement.java | 48 - .../biocatalogue/test/TestUtilURLHandling.java | 103 - .../biocatalogue/test/TestXHTMLRenderer.java | 58 - .../biocatalogue/test/WrappableJLabelTest.java | 51 - .../taverna/biocatalogue/test/XStreamTest.java | 48 - .../ui/BioCatalogueExplorationTab.java | 147 - .../ui/HasDefaultFocusCapability.java | 31 - .../biocatalogue/ui/JClickableLabel.java | 188 - .../taverna/biocatalogue/ui/JWaitDialog.java | 250 -- .../biocatalogue/ui/SearchOptionsPanel.java | 183 - .../ui/filtertree/FilterTreeNode.java | 107 - .../ui/filtertree/FilterTreePane.java | 364 -- .../biocatalogue/ui/filtertree/JFilterTree.java | 85 - ...xpandableOnDemandLoadedListCellRenderer.java | 236 -- .../RESTMethodListCellRenderer.java | 264 -- .../SOAPOperationListCellRenderer.java | 273 -- .../SearchResultsListingPanel.java | 886 ----- .../search_results/SearchResultsMainPanel.java | 514 --- .../search_results/SearchResultsRenderer.java | 63 - .../search_results/ServiceListCellRenderer.java | 307 -- .../ui/tristatetree/JTriStateTree.java | 647 ---- .../tristatetree/Swing - Tristate CheckBox.7z | Bin 108419 -> 0 bytes .../biocatalogue/ui/tristatetree/Test.java | 83 - .../ui/tristatetree/TriStateCheckBox.java | 188 - .../TriStateCheckBoxTreeCellRenderer.java | 78 - .../TriStateTreeCheckingListener.java | 28 - .../ui/tristatetree/TriStateTreeNode.java | 262 -- .../biocatalogue/BioCataloguePerspective.java | 86 - .../biocatalogue/MainComponent.java | 301 -- .../biocatalogue/MainComponentFactory.java | 62 - .../biocatalogue/MainComponentShutdownHook.java | 65 - .../biocatalogue/TestJFrameForLocalLaunch.java | 84 - .../biocatalogue/integration/Integration.java | 534 --- .../config/BioCataloguePluginConfiguration.java | 84 - .../BioCataloguePluginConfigurationPanel.java | 464 --- ...ioCataloguePluginConfigurationUIFactory.java | 43 - ...aloguePluginInputPortContextViewFactory.java | 61 - ...loguePluginOutputPortContextViewFactory.java | 61 - ...aloguePluginProcessorContextViewFactory.java | 59 - .../ProcessorInputPortView.java | 68 - .../ProcessorOutputPortView.java | 68 - .../contextual_views/ProcessorView.java | 245 -- .../BioCatalogueWSDLActivityHealthCheck.java | 56 - ...ueWSDLActivityHealthCheckVisitExplainer.java | 127 - .../BioCatalogueWSDLActivityHealthChecker.java | 215 -- .../health_check/ServiceHealthChecker.java | 296 -- .../ServiceMonitoringStatusInterpreter.java | 93 - .../BioCatalogueContextualMenuSection.java | 78 - .../integration/menus/MenuActionInputPort.java | 59 - .../menus/MenuActionProcessorHealthCheck.java | 67 - .../BioCatalogueRESTServiceProvider.java | 113 - .../BioCatalogueServiceProvider.java | 290 -- ...ioCatalogueWSDLOperationServiceProvider.java | 211 -- .../RESTFromBioCatalogueServiceDescription.java | 190 - ...ationFromBioCatalogueServiceDescription.java | 112 - ...rvicedescriptions.ServiceDescriptionProvider | 2 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 2 - .../net.sf.taverna.t2.workbench.ShutdownSPI | 1 - ...rkbench.configuration.ConfigurationUIFactory | 1 - ...t2.workbench.report.explainer.VisitExplainer | 1 - ...ntextualviews.activity.ContextualViewFactory | 3 - ...taverna.t2.workbench.ui.zaria.PerspectiveSPI | 1 - ....t2.workbench.ui.zaria.UIComponentFactorySPI | 1 - ...taverna.t2.workbench.ui.zaria.UIComponentSPI | 1 - ...averna.t2.workflowmodel.health.HealthChecker | 1 - .../ajax-loader-grey-bert2-still.png | Bin 1271 -> 0 bytes .../biocatalogue/ajax-loader-grey-bert2.gif | Bin 3951 -> 0 bytes .../ajax-loader-orange-bert2-still.png | Bin 1214 -> 0 bytes .../biocatalogue/ajax-loader-orange-bert2.gif | Bin 3951 -> 0 bytes .../biocatalogue/ajax-loader-still.gif | Bin 889 -> 0 bytes .../perspectives/biocatalogue/ajax-loader.gif | Bin 1456 -> 0 bytes .../biocatalogue/biocatalogue-perspective.xml | 38 - .../biocatalogue/biocatalogue_styles.css | 2673 ------------- .../biocatalogue/blue-sphere-50.png | Bin 1936 -> 0 bytes .../biocatalogue/cross-sphere-35.png | Bin 2748 -> 0 bytes .../biocatalogue/cross-sphere-50.png | Bin 7161 -> 0 bytes .../biocatalogue/famfamfam_silk/accept.png | Bin 781 -> 0 bytes .../biocatalogue/famfamfam_silk/add - tick.pdn | Bin 5367 -> 0 bytes .../biocatalogue/famfamfam_silk/add - tick.png | Bin 784 -> 0 bytes .../biocatalogue/famfamfam_silk/add.png | Bin 733 -> 0 bytes .../famfamfam_silk/application_form_add.png | Bin 592 -> 0 bytes .../arrow_join (flipped vertically).png | Bin 669 -> 0 bytes .../biocatalogue/famfamfam_silk/arrow_left.png | Bin 557 -> 0 bytes .../famfamfam_silk/arrow_refresh.png | Bin 685 -> 0 bytes .../biocatalogue/famfamfam_silk/arrow_right.png | Bin 596 -> 0 bytes .../famfamfam_silk/chart_organisation.png | Bin 444 -> 0 bytes .../biocatalogue/famfamfam_silk/cross.png | Bin 655 -> 0 bytes .../biocatalogue/famfamfam_silk/disk.png | Bin 620 -> 0 bytes .../biocatalogue/famfamfam_silk/error.png | Bin 666 -> 0 bytes .../biocatalogue/famfamfam_silk/exclamation.png | Bin 701 -> 0 bytes .../external_link_listing_small.png | Bin 456 -> 0 bytes .../famfamfam_silk/folder_explore.png | Bin 679 -> 0 bytes .../biocatalogue/famfamfam_silk/grey_circle.png | Bin 586 -> 0 bytes .../biocatalogue/famfamfam_silk/help.png | Bin 786 -> 0 bytes .../biocatalogue/famfamfam_silk/information.png | Bin 778 -> 0 bytes .../biocatalogue/famfamfam_silk/lightbulb.png | Bin 782 -> 0 bytes .../biocatalogue/famfamfam_silk/lock.png | Bin 749 -> 0 bytes .../biocatalogue/famfamfam_silk/lock_open.png | Bin 727 -> 0 bytes .../biocatalogue/famfamfam_silk/magnifier.png | Bin 615 -> 0 bytes .../famfamfam_silk/multiple_star.png | Bin 676 -> 0 bytes .../famfamfam_silk/page_white_code.png | Bin 603 -> 0 bytes .../biocatalogue/famfamfam_silk/plugin.png | Bin 591 -> 0 bytes .../famfamfam_silk/remote_resource.png | Bin 957 -> 0 bytes .../biocatalogue/famfamfam_silk/server.png | Bin 530 -> 0 bytes .../biocatalogue/famfamfam_silk/star.png | Bin 670 -> 0 bytes .../biocatalogue/famfamfam_silk/style.png | Bin 813 -> 0 bytes .../biocatalogue/famfamfam_silk/sum.png | Bin 289 -> 0 bytes .../biocatalogue/famfamfam_silk/tag_blue.png | Bin 586 -> 0 bytes .../text_linespacing (collapse).png | Bin 371 -> 0 bytes .../famfamfam_silk/text_linespacing.png | Bin 363 -> 0 bytes .../famfamfam_silk/text_list_numbers.png | Bin 357 -> 0 bytes .../biocatalogue/famfamfam_silk/tick.png | Bin 537 -> 0 bytes .../biocatalogue/famfamfam_silk/user.png | Bin 741 -> 0 bytes .../t2/ui/perspectives/biocatalogue/favicon.png | Bin 1336 -> 0 bytes .../ui/perspectives/biocatalogue/folds/fold.png | Bin 331 -> 0 bytes .../biocatalogue/folds/fold_16x16.png | Bin 361 -> 0 bytes .../perspectives/biocatalogue/folds/unfold.png | Bin 334 -> 0 bytes .../biocatalogue/folds/unfold_16x16.png | Bin 354 -> 0 bytes .../biocatalogue/info-sphere-35.png | Bin 2492 -> 0 bytes .../biocatalogue/info-sphere-50.png | Bin 2439 -> 0 bytes .../biocatalogue/open_in_BioCatalogue.pdn | Bin 5128 -> 0 bytes .../biocatalogue/open_in_BioCatalogue.png | Bin 663 -> 0 bytes .../biocatalogue/pling-sphere-35.png | Bin 2275 -> 0 bytes .../biocatalogue/pling-sphere-50.png | Bin 1724 -> 0 bytes .../biocatalogue/query-sphere-35.png | Bin 2473 -> 0 bytes .../biocatalogue/query-sphere-50.png | Bin 1854 -> 0 bytes .../service_icons/service_type_multitype.png | Bin 1133 -> 0 bytes .../service_icons/service_type_rest.png | Bin 1137 -> 0 bytes .../service_icons/service_type_soap.png | Bin 1131 -> 0 bytes .../service_icons/service_type_unknown.png | Bin 1076 -> 0 bytes .../soap_rest_multitype_unknown.pdn | Bin 6693 -> 0 bytes .../t2/ui/perspectives/biocatalogue/styles.css | 290 -- .../t2/ui/perspectives/biocatalogue/test.html | 78 - .../biocatalogue/tick-sphere-35.png | Bin 2479 -> 0 bytes .../biocatalogue/tick-sphere-50.png | Bin 1909 -> 0 bytes .../t2/ui/perspectives/biocatalogue/trash.png | Bin 460 -> 0 bytes .../tristate_checkbox_checked.png | Bin 1050 -> 0 bytes .../tristate_checkbox_partial.png | Bin 1042 -> 0 bytes .../tristate_checkbox_partial_green.png | Bin 993 -> 0 bytes .../tristate_checkbox_unchecked.png | Bin 1033 -> 0 bytes .../ui/perspectives/biocatalogue/unchecked.png | Bin 3636 -> 0 bytes .../src/main/xsd/dc.xsd | 119 - .../src/main/xsd/dcterms.xsd | 137 - .../src/main/xsd/schema-v1.xsd | 3572 ------------------ .../src/main/xsd/xlink.xsd | 83 - 191 files changed, 22832 deletions(-) ---------------------------------------------------------------------- http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/NOTICE ---------------------------------------------------------------------- diff --git a/NOTICE b/NOTICE index 852e947..5dd9b91 100644 --- a/NOTICE +++ b/NOTICE @@ -119,41 +119,3 @@ taverna-ui/src/main/java/org/apache/taverna/lang/ui/treetable/ nuclear facility. --------------------------------------------------------- -incubator-taverna-workbench/taverna-perspective-biocatalogue/src/main/resources/net/sf/taverna/t2/ui/perspectives/biocatalogue/service_icons/soap_rest_multitype_unknown.pdn - -TODO: License should be clarified - ---------------------------------------------------------- -incubator-taverna-workbench/taverna-perspective-biocatalogue/src/main/resources/net/sf/taverna/t2/ui/perspectives/biocatalogue/famfamfam_silk/ - -Source: http://www.famfamfam.com/lab/icons/silk/ - -Created by Mark James -Licensed as Creative Commons Attribution 3.0 License -http://creativecommons.org/licenses/by/3.0/ - ---------------------------------------------------------- - -taverna-perspective-biocatalogue/src/main/resources/net/sf/taverna/t2/ui/perspectives/biocatalogue/biocatalogue_styles.css -taverna-perspective-biocatalogue/src/main/resources/net/sf/taverna/t2/ui/perspectives/biocatalogue/styles.css -taverna-perspective-biocatalogue/src/main/resources/net/sf/taverna/t2/ui/perspectives/biocatalogue/test.html -taverna-perspective-myexperiment/src/main/resources/org/apache/taverna/ui/perspectives/myexperiment/styles.css - -TODO: License should be clarified - --------------- -taverna-perspective-biocatalogue/src/main/xsd/dcterms.xsd -taverna-perspective-biocatalogue/src/main/xsd/dc.xsd - -TODO: License should be clarified -Derived from http://dublincore.org/schemas/xmls/qdc/2006/01/06/dc.xsd -http://dublincore.org/schemas/xmls/qdc/2006/01/06/dcterms.xsd - --------------- - -taverna-perspective-biocatalogue/src/main/xsd/xlink.xsd - -From http://www.loc.gov/standards/mets/xlink.xsd - -TODO: License should be clarified - http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/pom.xml ---------------------------------------------------------------------- diff --git a/pom.xml b/pom.xml index d7a8308..1fca2e6 100644 --- a/pom.xml +++ b/pom.xml @@ -72,7 +72,6 @@ <module>taverna-menu-impl</module> <module>taverna-menu-items</module> <module>taverna-parallelize-ui</module> - <module>taverna-perspective-biocatalogue</module> <module>taverna-perspective-design</module> <module>taverna-perspective-myexperiment</module> <module>taverna-plugin-manager</module> @@ -133,9 +132,6 @@ <exclude>**/*.json</exclude> <!-- License details are mentioned in NOTICE ... --> <exclude>**/src/main/jjtree/dotparser.jjt</exclude> - <!-- Can't add license headers to a text file --> - <exclude>**/src/main/help/Index-TOC-Map-Additions.txt</exclude> - <exclude>**/src/main/resources/net/sf/taverna/t2/ui/perspectives/biocatalogue/*/*.pdn</exclude> </excludes> </configuration> </plugin> http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/lib/core-renderer.jar ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/lib/core-renderer.jar b/taverna-perspective-biocatalogue/lib/core-renderer.jar deleted file mode 100644 index 871fabf..0000000 Binary files a/taverna-perspective-biocatalogue/lib/core-renderer.jar and /dev/null differ http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/pom.xml ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/pom.xml b/taverna-perspective-biocatalogue/pom.xml deleted file mode 100644 index 929c3b3..0000000 --- a/taverna-perspective-biocatalogue/pom.xml +++ /dev/null @@ -1,206 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!-- - Licensed to the Apache Software Foundation (ASF) under one or more - contributor license agreements. See the NOTICE file distributed with - this work for additional information regarding copyright ownership. - The ASF licenses this file to You under the Apache License, Version 2.0 - (the "License"); you may not use this file except in compliance with - the License. You may obtain a copy of the License at - - http://www.apache.org/licenses/LICENSE-2.0 - - Unless required by applicable law or agreed to in writing, software - distributed under the License is distributed on an "AS IS" BASIS, - WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. - See the License for the specific language governing permissions and - limitations under the License. ---> -<project xmlns="http://maven.apache.org/POM/4.0.0"; xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"; - xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/maven-v4_0_0.xsd";> - <modelVersion>4.0.0</modelVersion> - <parent> - <groupId>org.apache.taverna.workbench</groupId> - <artifactId>apache-taverna-workbench</artifactId> - <version>3.1.0-incubating-SNAPSHOT</version> - </parent> - <artifactId>taverna-perspective-biocatalogue</artifactId> - <name>Apache Taverna BioCatalogue Perspective</name> - <repositories> - <repository> - <!-- FIXME: Avoid this repository --> - <releases /> - <snapshots> - <enabled>false</enabled> - </snapshots> - <id>fuse</id> - <name>fuseRepository</name> - <url>http://repo.fusesource.com/maven2-all/</url> - </repository> - </repositories> - - <dependencies> - <!-- <dependency> <groupId>${project.parent.groupId}</groupId> <artifactId>perspective-core</artifactId> - <version>${project.parent.version}</version> </dependency> --> - <dependency> - <groupId>org.apache.taverna.engine</groupId> - <artifactId>taverna-workflowmodel-impl</artifactId> - <version>${taverna.engine.version}</version> - </dependency> - <dependency> - <groupId>${project.parent.groupId}</groupId> - <artifactId>taverna-menu-api</artifactId> - <version>${project.parent.version}</version> - </dependency> - <dependency> - <groupId>${project.parent.groupId}</groupId> - <artifactId>taverna-file-api</artifactId> - <version>${project.parent.version}</version> - </dependency> - <dependency> - <groupId>${project.parent.groupId}</groupId> - <artifactId>taverna-ui</artifactId> - <version>${project.parent.version}</version> - </dependency> - <!-- required for providing contextual views in the bottom-left area of - Design perspective --> - <dependency> - <groupId>${project.parent.groupId}</groupId> - <artifactId>taverna-contextual-views-api</artifactId> - <version>${project.parent.version}</version> - </dependency> - <!-- required for inserting a SOAP processor into the current workflow --> - <dependency> - <groupId>org.apache.taverna.workbench.commonactivities</groupId> - <artifactId>taverna-wsdl-activity-ui</artifactId> - <version>${taverna.commonactivities.version}</version> - </dependency> - <!-- required for importing REST processors into the current workflow --> - <dependency> - <groupId>org.apache.taverna.workbench.commonactivities</groupId> - <artifactId>taverna-rest-activity-ui</artifactId> - <version>${taverna.commonactivities.version}</version> - </dependency> - <!-- required for inserting a processor into the current workflow --> - <dependency> - <groupId>${project.parent.groupId}</groupId> - <artifactId>taverna-workflow-view</artifactId> - <version>${project.parent.version}</version> - </dependency> - <!-- required registering with and opening help window --> - <dependency> - <groupId>${project.parent.groupId}</groupId> - <artifactId>taverna-helper</artifactId> - <version>${project.parent.version}</version> - </dependency> - <dependency> - <groupId>org.apache.taverna.osgi</groupId> - <artifactId>taverna-app-configuration-api</artifactId> - <version>${taverna.osgi.version}</version> - </dependency> - - <dependency> - <groupId>org.jdom</groupId> - <artifactId>com.springsource.org.jdom</artifactId> - <version>${jdom.version}</version> - </dependency> - <dependency> - <groupId>log4j</groupId> - <artifactId>log4j</artifactId> - <version>${log4j.version}</version> - </dependency> - <dependency> - <groupId>org.apache.xmlbeans</groupId> - <artifactId>com.springsource.org.apache.xmlbeans</artifactId> - <version>${xmlbeans.version}</version> - </dependency> - - - <!-- FlyingSaucer XHTML Renderer --> - <!-- (it is critical to use version R8, not any earlier ones - e.g. R8pre2, - etc.) --> - <dependency> - <groupId>org.xhtmlrenderer</groupId> - <artifactId>core-renderer</artifactId> - <version>${org.xhtmlrenderer.core-renderer.version}</version> - <exclusions> - <exclusion> - <groupId>bouncycastle</groupId> - <artifactId>bcprov-jdk14</artifactId> - </exclusion> - <exclusion> - <groupId>bouncycastle</groupId> - <artifactId>bcmail-jdk14</artifactId> - </exclusion> - </exclusions> - </dependency> - - <!-- At least StringEscapeUtils class is used from this library --> - <dependency> - <groupId>org.apache.commons</groupId> - <artifactId>com.springsource.org.apache.commons.lang</artifactId> - <version>${commons.lang.version}</version> - </dependency> - - <!-- Gson: Java to Json conversion --> - <dependency> - <groupId>com.google.code.gson</groupId> - <artifactId>gson</artifactId> - <version>${gson.version}</version> - </dependency> - <dependency> - <groupId>org.apache.taverna.commonactivities</groupId> - <artifactId>taverna-rest-activity</artifactId> - <version>2.1.0-incubating-SNAPSHOT</version> - <type>jar</type> - </dependency> - <dependency> - <groupId>org.apache.taverna.commonactivities</groupId> - <artifactId>taverna-wsdl-activity</artifactId> - <version>2.1.0-incubating-SNAPSHOT</version> - <type>jar</type> - </dependency> - <dependency> - <groupId>org.apache.taverna.workbench</groupId> - <artifactId>taverna-activity-palette-impl</artifactId> - <version>3.1.0-incubating-SNAPSHOT</version> - <type>jar</type> - </dependency> - <dependency> - <groupId>org.apache.taverna.ui-activities</groupId> - <artifactId>taverna-rest-activity-ui</artifactId> - <version>3.1.0-incubating-SNAPSHOT</version> - <type>jar</type> - </dependency> - </dependencies> - - <build> - <!-- Adds "xmlbeans:xmlbeans" Maven2 goal to compile the API binding classes - from XSD schema. --> - <plugins> - <plugin> - <groupId>org.codehaus.mojo</groupId> - <artifactId>xmlbeans-maven-plugin</artifactId> - <version>2.3.3</version> - <executions> - <execution> - <goals> - <goal>xmlbeans</goal> - </goals> - </execution> - </executions> - <inherited>true</inherited> - <configuration> - <!-- "javaSource=1.5" is required to make use of generics and have getXXXList() - methods available, not just getXXXArrray() --> - <javaSource>1.5</javaSource> - <download>true</download> - <schemaDirectory>src/main/xsd</schemaDirectory> - <!-- Default is target/generated-sources/xmlbeans - which the Maven - plugin should be able to add to the Project classpath --> - <!-- <sourceGenerationDirectory>src/main/java</sourceGenerationDirectory> --> - </configuration> - </plugin> - </plugins> - </build> - <packaging>bundle</packaging> -</project> http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/schema_compilation/move_scomp_results_into_project.bat ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/schema_compilation/move_scomp_results_into_project.bat b/taverna-perspective-biocatalogue/schema_compilation/move_scomp_results_into_project.bat deleted file mode 100644 index ca5a053..0000000 --- a/taverna-perspective-biocatalogue/schema_compilation/move_scomp_results_into_project.bat +++ /dev/null @@ -1,47 +0,0 @@ -@echo off - -goto LicenseEnd - - Licensed to the Apache Software Foundation (ASF) under one - or more contributor license agreements. See the NOTICE file - distributed with this work for additional information - regarding copyright ownership. The ASF licenses this file - to you under the Apache License, Version 2.0 (the - "License"); you may not use this file except in compliance - with the License. You may obtain a copy of the License at - http://www.apache.org/licenses/LICENSE-2.0 - Unless required by applicable law or agreed to in writing, software - distributed under the License is distributed on an "AS IS" BASIS, - WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. - See the License for the specific language governing permissions and - limitations under the License. - -:LicenseEnd - -echo This will replace the JAR file with compiled API classes -pause -del ..\lib\biocatalogue_api_classes.jar -move biocatalogue_api_classes.jar ..\lib\ -echo JAR file replaced -echo. - -REM replace the sources of API classes -echo This will delete *ALL* files in \src\main\java\org\biocatalogue -echo \src\main\java\org\purl -echo \src\main\java\org\w3 -pause - -rd /S /Q ..\src\main\java\org\biocatalogue -rd /S /Q ..\src\main\java\org\purl -rd /S /Q ..\src\main\java\org\w3 - -move /Y org\biocatalogue ..\src\main\java\org -move /Y org\purl ..\src\main\java\org -move /Y org\w3 ..\src\main\java\org -rd org - -echo Sources of API classes replaced -echo. - -echo Done! -pause \ No newline at end of file http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/schema_compilation/scomp_compile_from_web.bat ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/schema_compilation/scomp_compile_from_web.bat b/taverna-perspective-biocatalogue/schema_compilation/scomp_compile_from_web.bat deleted file mode 100644 index 451d8f2..0000000 --- a/taverna-perspective-biocatalogue/schema_compilation/scomp_compile_from_web.bat +++ /dev/null @@ -1,27 +0,0 @@ -@echo off - -goto LicenseEnd - - Licensed to the Apache Software Foundation (ASF) under one - or more contributor license agreements. See the NOTICE file - distributed with this work for additional information - regarding copyright ownership. The ASF licenses this file - to you under the Apache License, Version 2.0 (the - "License"); you may not use this file except in compliance - with the License. You may obtain a copy of the License at - http://www.apache.org/licenses/LICENSE-2.0 - Unless required by applicable law or agreed to in writing, software - distributed under the License is distributed on an "AS IS" BASIS, - WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. - See the License for the specific language governing permissions and - limitations under the License. - -:LicenseEnd - -REM -src . -- put source files here -REM -srconly -- only sources, no compiling of java classes, no jar bundling -REM -compiler -- where to find javac -REM -javasource -- which JAVA version to aim for (1.5 uses generics) -REM -dl -- allows download of referenced schemas - -scomp -src . -srconly -compiler "%JAVA_HOME%\bin\javac.exe" -javasource 1.5 -dl http://www.biocatalogue.org/2009/xml/rest/schema-v1.xsd \ No newline at end of file http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/schema_compilation/scomp_compile_from_web_to_jar.bat ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/schema_compilation/scomp_compile_from_web_to_jar.bat b/taverna-perspective-biocatalogue/schema_compilation/scomp_compile_from_web_to_jar.bat deleted file mode 100644 index ab95ff9..0000000 --- a/taverna-perspective-biocatalogue/schema_compilation/scomp_compile_from_web_to_jar.bat +++ /dev/null @@ -1,27 +0,0 @@ -@echo off - -goto LicenseEnd - - Licensed to the Apache Software Foundation (ASF) under one - or more contributor license agreements. See the NOTICE file - distributed with this work for additional information - regarding copyright ownership. The ASF licenses this file - to you under the Apache License, Version 2.0 (the - "License"); you may not use this file except in compliance - with the License. You may obtain a copy of the License at - http://www.apache.org/licenses/LICENSE-2.0 - Unless required by applicable law or agreed to in writing, software - distributed under the License is distributed on an "AS IS" BASIS, - WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. - See the License for the specific language governing permissions and - limitations under the License. - -:LicenseEnd - -REM -src . -- put source files here -REM -compiler -- where to find javac -REM -javasource -- which JAVA version to aim for (1.5 uses generics) -REM -out -- specifies the name of the target JAR file -REM -dl -- allows download of referenced schemas - -scomp -src . -compiler "%JAVA_HOME%\bin\javac.exe" -javasource 1.5 -out biocatalogue_api_classes.jar -dl http://www.biocatalogue.org/2009/xml/rest/schema-v1.xsd \ No newline at end of file http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/src/main/doc/BioCatalogue Plugin Documentation.odt ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/src/main/doc/BioCatalogue Plugin Documentation.odt b/taverna-perspective-biocatalogue/src/main/doc/BioCatalogue Plugin Documentation.odt deleted file mode 100644 index 85056d7..0000000 Binary files a/taverna-perspective-biocatalogue/src/main/doc/BioCatalogue Plugin Documentation.odt and /dev/null differ http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/src/main/help/Index-TOC-Map-Additions.txt ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/src/main/help/Index-TOC-Map-Additions.txt b/taverna-perspective-biocatalogue/src/main/help/Index-TOC-Map-Additions.txt deleted file mode 100644 index 8d6c953..0000000 --- a/taverna-perspective-biocatalogue/src/main/help/Index-TOC-Map-Additions.txt +++ /dev/null @@ -1,20 +0,0 @@ -/* http://www.mygrid.org.uk/taverna2_1/helpset/toc.xml */ - -<tocitem text="BioCatalogue Plugin" target="biocatalogue-plugin" expand="false"> - <tocitem text="Feature Overview" target="biocatalogue-plugin-features"/> - <tocitem text="Feedback" target="biocatalogue-plugin-feedback"/> -</tocitem> - - - -/* http://www.mygrid.org.uk/taverna2_1/helpset/index.xml */ - -<indexitem text="BioCatalogue Plugin" target="biocatalogue-plugin"/> - - - -/* http://www.mygrid.org.uk/taverna2_1/helpset/map.xml */ - -<mapID target="biocatalogue-plugin" url="html/biocatalogue-plugin.html"/> -<mapID target="biocatalogue-plugin-features" url="html/biocatalogue-plugin-features.html"/> -<mapID target="biocatalogue-plugin-feedback" url="html/biocatalogue-plugin-feedback.html"/> \ No newline at end of file http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/src/main/help/biocatalogue-plugin-features.html ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/src/main/help/biocatalogue-plugin-features.html b/taverna-perspective-biocatalogue/src/main/help/biocatalogue-plugin-features.html deleted file mode 100644 index bce2b88..0000000 --- a/taverna-perspective-biocatalogue/src/main/help/biocatalogue-plugin-features.html +++ /dev/null @@ -1,128 +0,0 @@ -<html> -<!-- - Licensed to the Apache Software Foundation (ASF) under one - or more contributor license agreements. See the NOTICE file - distributed with this work for additional information - regarding copyright ownership. The ASF licenses this file - to you under the Apache License, Version 2.0 (the - "License"); you may not use this file except in compliance - with the License. You may obtain a copy of the License at - http://www.apache.org/licenses/LICENSE-2.0 - Unless required by applicable law or agreed to in writing, software - distributed under the License is distributed on an "AS IS" BASIS, - WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. - See the License for the specific language governing permissions and - limitations under the License. ---> - <head> - <meta content="text/html; charset=MacRoman" http-equiv="Content-Type"> - <link rel="stylesheet" href="./basic.css" type="text/css"> - <meta name="generator" content="Helen"> - <title>BioCatalogue Plugin - Features</title> - </head> - <body> - <h2> - BioCatalogue Plugin - Features - </h2> - - <h3> - BioCatalogue Perspective - </h3> - <p> - This perspective is designed for searching and browsing the BioCatalogue - data. It aids with discovery of Processors that may be used in a workflow. - </p> - - <p> - In the BioCatalogue perspective you may: - <ul> - <li>Search for Web Services by free text queries of by tags;</li> - <li>Filter search results by the same set of criteria as available on the BioCatalogue website;</li> - <li>Save favourite filters and search queries for re-use at a later point;</li> - <li>View search history;</li> - <li>Immediately see the types and monitoring statuses of all found Web - Services directly in the results listings;</li> - <li>Preview Web Services.</li> - </ul> - </p> - - <p> - Web Service previews display a similar set of information to - that shown on the BioCatalogue website: service description, - type, location, provider and other details are shown. Listing - of all operations and their descriptions within that Web Service - is shown. Any operation may be added directly into the current - workflow or into the Service Panel in the Design Perspective - for later use. - </p> - - <h3> - Integration into Design Perspective - </h3> - - <p> - <ul> - <li>Any Web Service operations added to the Service Panel from the BioCatalogue - perspective can be dragged into the Workflow Diagram like any other Processors. - They are saved by the plugin, so that when Taverna is restarted, those services - can still be found in the Service Panel. - </li> - <li>Right mouse click on a Processor in the Workflow Explorer or Workflow Diagram - will display options provided by the plugin - for all WSDL Processors it is - possible to check their monitoring status or launch the Processor Preview. - </li> - <li>Right mouse click on an empty space in the Workflow Diagram will let to launch - the workflow "health check" - currently this feature will identify a list of all - WSDL activities in a workflow and will fetch the latest monitoring data about - each of the from BioCatalogue. - </li> - <li>"Details" tab in the contextual view area (bottom-left corner of the Design - Perspective) will display information about the WSDL Processors and their - input or output ports (if they are registered in BioCatalogue). These contextual - views are only shown if BioCatalogue knows how to handle the selected type of - workflow element. - </li> - </ul> - </p> - - - <h3> - Choosing the BioCatalogue Instance to Work With - </h3> - - <p> - The BioCatalogue is an open-source project and anyone can setup their - own instance of the BioCatalogue software. By default, the plugin is - configured to use the main BioCatalogue website - (at <font color="blue">http://www.biocatalogue.org</font>) as a source - of data. - </p> - <p> - Should this be necessary, the plugin can be configured to use another - instance of BioCatalogue. This can be done through the Preferences dialog - of Taverna by going to: <pre>File -> Preferences -> BioCatalogue</pre> - </p> - - - <h3> - Known Issues and Missing Functionality - </h3> - - <p> - Below are the most important known issues. These will be fixed in the later releases. - </p> - - <p> - <ul> - <li>Previews are only available for SOAP services, but not REST services - or users, registries, service providers. - </li> - <li>Search history, favourite search queries and filters are not persisted. - This means that this data will only be available for the current working - session and will be lost after Taverna is switched off. - </li> - <li>Only read access to the BioCatalogue data is currently provided.</li> - </ul> - </p> - </body> -</html> http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/src/main/help/biocatalogue-plugin-feedback.html ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/src/main/help/biocatalogue-plugin-feedback.html b/taverna-perspective-biocatalogue/src/main/help/biocatalogue-plugin-feedback.html deleted file mode 100644 index a44c698..0000000 --- a/taverna-perspective-biocatalogue/src/main/help/biocatalogue-plugin-feedback.html +++ /dev/null @@ -1,43 +0,0 @@ -<html> -<!-- - Licensed to the Apache Software Foundation (ASF) under one - or more contributor license agreements. See the NOTICE file - distributed with this work for additional information - regarding copyright ownership. The ASF licenses this file - to you under the Apache License, Version 2.0 (the - "License"); you may not use this file except in compliance - with the License. You may obtain a copy of the License at - http://www.apache.org/licenses/LICENSE-2.0 - Unless required by applicable law or agreed to in writing, software - distributed under the License is distributed on an "AS IS" BASIS, - WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. - See the License for the specific language governing permissions and - limitations under the License. ---> - <head> - <meta content="text/html; charset=MacRoman" http-equiv="Content-Type"> - <link rel="stylesheet" href="./basic.css" type="text/css"> - <meta name="generator" content="Helen"> - <title>BioCatalogue Plugin - Feedback</title> - </head> - <body> - <h2> - BioCatalogue Plugin - Feedback - </h2> - <p> - Please provide us with your feedback to help improve the BioCatalogue plugin. - In order to do so, please go to <em>About</em> tab in the <em>BioCatalogue perspective</em> - and click the "Leave feedback" button - you will be taken to a web page with a form - to fill in and submit your comments. - </p> - <p> - Developers are very interested to hear: - <ul> - <li>suggestions regarding the existing functionality;</li> - <li>new feature requests;</li> - <li>ideas for improving the user interfaces;</li> - <li>any other feedback you may have.</li> - </ul> - </p> - </body> -</html> http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/src/main/help/biocatalogue-plugin.html ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/src/main/help/biocatalogue-plugin.html b/taverna-perspective-biocatalogue/src/main/help/biocatalogue-plugin.html deleted file mode 100644 index cc622ab..0000000 --- a/taverna-perspective-biocatalogue/src/main/help/biocatalogue-plugin.html +++ /dev/null @@ -1,69 +0,0 @@ -<html> -<!-- - Licensed to the Apache Software Foundation (ASF) under one - or more contributor license agreements. See the NOTICE file - distributed with this work for additional information - regarding copyright ownership. The ASF licenses this file - to you under the Apache License, Version 2.0 (the - "License"); you may not use this file except in compliance - with the License. You may obtain a copy of the License at - http://www.apache.org/licenses/LICENSE-2.0 - Unless required by applicable law or agreed to in writing, software - distributed under the License is distributed on an "AS IS" BASIS, - WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. - See the License for the specific language governing permissions and - limitations under the License. ---> - <head> - <meta content="text/html; charset=MacRoman" http-equiv="Content-Type"> - <link rel="stylesheet" href="./basic.css" type="text/css"> - <meta name="generator" content="Helen"> - <title>BioCatalogue Plugin</title> - </head> - <body> - <h2> - BioCatalogue Plugin - </h2> - <h3><small>Version: 0.1.1 (alpha)</small></h3> - <p> - The <em>BioCatalogue plugin</em> is intended to provide access to the data held - in the <em>BioCatalogue Web Services Registry</em> directly from <em>Taverna Workbench</em>. - </p> - <p> - In its current state the plugin is designed to: - <ul> - <li>display the integration capabilities with both BioCatalogue and Taverna;</li> - <li>provide a general idea of the kinds of data that can be fetched - from the Biocatalogue through its REST API; - </li> - <li>attempt to make the workflow composition process easier and provide useful - contextual data to help with understanding of existing workflows. - </li> - </ul> - </p> - <p> - This release has made the plugin compatible with the latest version of - Taverna - 2.2. Several important bugs were also fixed, however more new - functionality will be added soon. - </p> - <p> - To learn more about the available functionality, please see the <a href= - "./biocatalogue-plugin-features.html">feature list</a>. - </p> - <p><b> - Please note that this is an incomplete version of the BioCatalogue plugin. - You may see notifications that certain pieces of functionality have not been - implemented yet; some features are not yet fully stable, which means that - occasionally you may see unexpected error messages. - </b></p> - <p> - Any <a href="./biocatalogue-plugin-feedback.html">feedback</a> will be greatly apppreciated - it - will help to understand the true needs of the user community and develop - a complete version of this plugin later in the year. - </p> - <p> - This version of the plugin was developed by Sergejs Aleksejevs as part of his - final year project on the undergraduate Computer Science course at the University of Manchester. - </p> - </body> -</html> http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/BioCataloguePluginConstants.java ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/BioCataloguePluginConstants.java b/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/BioCataloguePluginConstants.java deleted file mode 100644 index 6a8275f..0000000 --- a/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/BioCataloguePluginConstants.java +++ /dev/null @@ -1,93 +0,0 @@ -package org.apache.taverna.biocatalogue.model; -/* - * Licensed to the Apache Software Foundation (ASF) under one or more - * contributor license agreements. See the NOTICE file distributed with - * this work for additional information regarding copyright ownership. - * The ASF licenses this file to You under the Apache License, Version 2.0 - * (the "License"); you may not use this file except in compliance with - * the License. You may obtain a copy of the License at - * - * http://www.apache.org/licenses/LICENSE-2.0 - * - * Unless required by applicable law or agreed to in writing, software - * distributed under the License is distributed on an "AS IS" BASIS, - * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. - * See the License for the specific language governing permissions and - * limitations under the License. - */ - -import java.io.File; - - -/** - * This class contains the collection of important constants, - * which are used throughout the BioCatalogue plugin. - * - * @author Sergejs Aleksejevs - */ -public class BioCataloguePluginConstants -{ - public static final String APP_VISIBLE_NAME = "Service Catalogue Plugin"; - public static final String APP_PREFIX = "T2ServiceCataloguePlugin:"; - - - public static final boolean PERFORM_API_RESPONSE_TIME_LOGGING = true; - public static final boolean PERFORM_API_XML_DATA_BINDING_TIME_LOGGING = true; - public static final String API_OPERATION_LOG_FILENAME = "service_catalogue_api.log"; - - - public static final int DEFAULT_SCROLL = 15; // default vertical scroll increment to be used in all JScrollPane instances within the plugin - public static final int DEFAULT_TOOLTIP_DURATION = 10000; // default duration of visibility of tooltips (in "ms") - public static final int DEFAULT_THREAD_STARTUP_TIME = 10; // this is the time (in "ms") that we think the system takes at most to start a new thread - - public static final int API_DEFAULT_REQUESTED_TAG_COUNT_PER_PAGE = 50; - public static final int API_DEFAULT_REQUESTED_WEB_SERVICE_COUNT_PER_PAGE = 20; - public static final int API_DEFAULT_REQUESTED_SOAP_OPERATION_COUNT_PER_PAGE = 20; - public static final int API_DEFAULT_REQUESTED_REST_METHOD_COUNT_PER_PAGE = 20; - public static final int API_DEFAULT_REQUESTED_USER_COUNT_PER_PAGE = 20; - public static final int API_DEFAULT_REQUESTED_SERVICE_PROVIDER_COUNT_PER_PAGE = 20; - - - public static final int SEARCH_HISTORY_LENGTH = 50; // maximum number of search history items to store (if exceeded, oldest will be removed) - public static final int FAVOURITE_SEARCHES_LENGTH = 30; // maximum number of favourite search settings to store (if exceeded, oldest will be removed) - public static final int FAVOURITE_FILTERS_LENGTH = 30; // maximum number of favourite service filters to store (if exceeded, oldest will be removed) - public static final int RESOURCE_PREVIEW_HISTORY_LENGTH = 50; - - public static final int RESOURCE_PREVIEW_BROWSER_PREFERRED_WIDTH = 750; - public static final int RESOURCE_PREVIEW_BROWSER_PREFERRED_HEIGHT = 600; - - public static final String ACTION_FILTER_FOUND_SERVICES = APP_PREFIX + "filterFoundServices:"; - public static final String ACTION_FILTER_BY_CATEGORY = APP_PREFIX + "filterByCategory:"; - public static final String ACTION_SHOW_IN_WEB_BROWSER = APP_PREFIX + "showInWebBrowser:"; - public static final String ACTION_SHOW_TAG_SELECTION_DIALOG = APP_PREFIX + "showTagSelectionDialgog"; - public static final String ACTION_PREVIEW_CURRENT_FILTER = APP_PREFIX + "previewCurrentFilter"; - public static final String ACTION_PREVIEW_RESOURCE = APP_PREFIX + "preview:"; - public static final String ACTION_PREVIEW_SOAP_OPERATION_AFTER_LOOKUP = APP_PREFIX + "previewSoapOperationAfterLookup:"; - public static final String ACTION_PREVIEWED_SERVICE_HEALTH_CHECK = APP_PREFIX + "previewedServiceHealthCheck"; - public static final String ACTION_TAG_SEARCH_PREFIX = APP_PREFIX + "tag:"; - - - - public static final String CONFIG_FILE_FOLDER_WHEN_RUNNING_STANDALONE = ".Taverna2-ServiceCatalogue Plugin"; - - - - // ---------------------------- CONTEXTUAL VIEWS -------------------------------- - - // this value currently makes contextual views generated by this - // plugin the to be the last in the list - public static final int CONTEXTUAL_VIEW_PREFERRED_POSITION = 600; - - - - // ------------------------------------------------------------------------------ - - /* - * Some of the settings are determined during the runtime - hence are non-final. - * - * These are set in MainComponent.initialiseEnvironment() - */ - - public static File CONFIG_FILE_FOLDER = new File(ApplicationRuntime.getInstance().getApplicationHomeDir(), "conf"); - public static File LOG_FILE_FOLDER = new File(ApplicationRuntime.getInstance().getApplicationHomeDir(), "logs"); -} http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/HTTPMethodInterpreter.java ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/HTTPMethodInterpreter.java b/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/HTTPMethodInterpreter.java deleted file mode 100644 index b82960a..0000000 --- a/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/HTTPMethodInterpreter.java +++ /dev/null @@ -1,62 +0,0 @@ -package org.apache.taverna.biocatalogue.model; -/* - * Licensed to the Apache Software Foundation (ASF) under one or more - * contributor license agreements. See the NOTICE file distributed with - * this work for additional information regarding copyright ownership. - * The ASF licenses this file to You under the Apache License, Version 2.0 - * (the "License"); you may not use this file except in compliance with - * the License. You may obtain a copy of the License at - * - * http://www.apache.org/licenses/LICENSE-2.0 - * - * Unless required by applicable law or agreed to in writing, software - * distributed under the License is distributed on an "AS IS" BASIS, - * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. - * See the License for the specific language governing permissions and - * limitations under the License. - */ - -import org.apache.log4j.Logger; -import org.biocatalogue.x2009.xml.rest.HttpVerb; - -import org.apache.taverna.activities.rest.RESTActivity.HTTP_METHOD; - -/** - * Very simple class for translating HTTP method values returned - * by the BioCatalogue API into the set of values that are used - * by the REST activity. - * - * @author Sergejs Aleksejevs - */ -public class HTTPMethodInterpreter -{ - // deny instantiation of this class - private HTTPMethodInterpreter() { } - - public static HTTP_METHOD getHTTPMethodForRESTActivity(HttpVerb.Enum httpVerb) - { - switch (httpVerb.intValue()) { - case HttpVerb.INT_GET: return HTTP_METHOD.GET; - case HttpVerb.INT_POST: return HTTP_METHOD.POST; - case HttpVerb.INT_PUT: return HTTP_METHOD.PUT; - case HttpVerb.INT_DELETE: return HTTP_METHOD.DELETE; - default: - String errorMsg = "Unable to translate " + httpVerb.toString() + " to correct representation for REST activity;\n" + - "this HTTP method wasn't supported at the time of implementation."; - Logger.getLogger(HTTPMethodInterpreter.class).error(errorMsg); - throw new UnsupportedHTTPMethodException(errorMsg); - } - } - - - public static class UnsupportedHTTPMethodException extends IllegalArgumentException - { - public UnsupportedHTTPMethodException() { - /* empty constructor */ - } - - public UnsupportedHTTPMethodException(String message) { - super(message); - } - } -} http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/LoadingExpandedResource.java ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/LoadingExpandedResource.java b/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/LoadingExpandedResource.java deleted file mode 100644 index 083c380..0000000 --- a/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/LoadingExpandedResource.java +++ /dev/null @@ -1,57 +0,0 @@ -package org.apache.taverna.biocatalogue.model; -/* - * Licensed to the Apache Software Foundation (ASF) under one or more - * contributor license agreements. See the NOTICE file distributed with - * this work for additional information regarding copyright ownership. - * The ASF licenses this file to You under the Apache License, Version 2.0 - * (the "License"); you may not use this file except in compliance with - * the License. You may obtain a copy of the License at - * - * http://www.apache.org/licenses/LICENSE-2.0 - * - * Unless required by applicable law or agreed to in writing, software - * distributed under the License is distributed on an "AS IS" BASIS, - * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. - * See the License for the specific language governing permissions and - * limitations under the License. - */ - -import org.biocatalogue.x2009.xml.rest.ResourceLink; -import org.biocatalogue.x2009.xml.rest.impl.ResourceLinkImpl; - -/** - * @author Sergejs Aleksejevs - */ -public class LoadingExpandedResource extends ResourceLinkImpl -{ - private boolean nowLoading; - private ResourceLink associatedObj; - - public LoadingExpandedResource(ResourceLink associatedObj) - { - super(ResourceLink.type); - - this.associatedObj = associatedObj; - this.nowLoading = true; - } - - public ResourceLink getAssociatedObj() { - return associatedObj; - } - - public boolean isLoading() { - return (nowLoading); - } - public void setLoading(boolean isLoading) { - this.nowLoading = isLoading; - } - - public String getHref() { - return (associatedObj.getHref()); - } - - public String getResourceName() { - return (associatedObj.getResourceName()); - } -} - http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/LoadingResource.java ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/LoadingResource.java b/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/LoadingResource.java deleted file mode 100644 index dd04723..0000000 --- a/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/LoadingResource.java +++ /dev/null @@ -1,55 +0,0 @@ -package org.apache.taverna.biocatalogue.model; -/* - * Licensed to the Apache Software Foundation (ASF) under one or more - * contributor license agreements. See the NOTICE file distributed with - * this work for additional information regarding copyright ownership. - * The ASF licenses this file to You under the Apache License, Version 2.0 - * (the "License"); you may not use this file except in compliance with - * the License. You may obtain a copy of the License at - * - * http://www.apache.org/licenses/LICENSE-2.0 - * - * Unless required by applicable law or agreed to in writing, software - * distributed under the License is distributed on an "AS IS" BASIS, - * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. - * See the License for the specific language governing permissions and - * limitations under the License. - */ - -import org.biocatalogue.x2009.xml.rest.ResourceLink; -import org.biocatalogue.x2009.xml.rest.impl.ResourceLinkImpl; - -/** - * @author Sergejs Aleksejevs - */ -public class LoadingResource extends ResourceLinkImpl -{ - private boolean nowLoading; - private ResourceLink associatedObj; - - public LoadingResource(String resourceURL, String resourceName) { - super(ResourceLink.type); - - associatedObj = ResourceLink.Factory.newInstance(); - associatedObj.setHref(resourceURL); - associatedObj.setResourceName(resourceName); - - this.nowLoading = false; - } - - public String getHref() { - return (associatedObj.getHref()); - } - - public String getResourceName() { - return (associatedObj.getResourceName()); - } - - public boolean isLoading() { - return (nowLoading); - } - public void setLoading(boolean isLoading) { - this.nowLoading = isLoading; - } - -} http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/Pair.java ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/Pair.java b/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/Pair.java deleted file mode 100644 index 2ee9ed1..0000000 --- a/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/Pair.java +++ /dev/null @@ -1,46 +0,0 @@ -package org.apache.taverna.biocatalogue.model; -/* - * Licensed to the Apache Software Foundation (ASF) under one or more - * contributor license agreements. See the NOTICE file distributed with - * this work for additional information regarding copyright ownership. - * The ASF licenses this file to You under the Apache License, Version 2.0 - * (the "License"); you may not use this file except in compliance with - * the License. You may obtain a copy of the License at - * - * http://www.apache.org/licenses/LICENSE-2.0 - * - * Unless required by applicable law or agreed to in writing, software - * distributed under the License is distributed on an "AS IS" BASIS, - * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. - * See the License for the specific language governing permissions and - * limitations under the License. - */ - -/** - * Trivial class to represent a generic pair of objects. - * Any types of objects can be used. - * - * @author Sergejs Aleksejevs - * - * @param <T1> Type of the first object. - * @param <T2> Type of the second object. - */ -public class Pair<T1,T2> -{ - private final T1 firstObject; - private final T2 secondObject; - - public Pair(T1 firstObject, T2 secondObject) { - this.firstObject = firstObject; - this.secondObject = secondObject; - } - - public T1 getFirstObject() { - return firstObject; - } - - public T2 getSecondObject() { - return secondObject; - } - -} http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/52817a33/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/Resource.java ---------------------------------------------------------------------- diff --git a/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/Resource.java b/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/Resource.java deleted file mode 100644 index 75adb28..0000000 --- a/taverna-perspective-biocatalogue/src/main/java/org/apache/taverna/biocatalogue/model/Resource.java +++ /dev/null @@ -1,522 +0,0 @@ -package org.apache.taverna.biocatalogue.model; -/* - * Licensed to the Apache Software Foundation (ASF) under one or more - * contributor license agreements. See the NOTICE file distributed with - * this work for additional information regarding copyright ownership. - * The ASF licenses this file to You under the Apache License, Version 2.0 - * (the "License"); you may not use this file except in compliance with - * the License. You may obtain a copy of the License at - * - * http://www.apache.org/licenses/LICENSE-2.0 - * - * Unless required by applicable law or agreed to in writing, software - * distributed under the License is distributed on an "AS IS" BASIS, - * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. - * See the License for the specific language governing permissions and - * limitations under the License. - */ - -import java.util.HashMap; -import java.util.Map; - -import javax.swing.Icon; -import javax.swing.JOptionPane; -import javax.swing.ListCellRenderer; - -import org.apache.taverna.biocatalogue.model.connectivity.BeansForJSONLiteAPI; -import org.apache.taverna.biocatalogue.model.connectivity.BioCatalogueClient; -import org.apache.taverna.biocatalogue.ui.search_results.RESTMethodListCellRenderer; -import org.apache.taverna.biocatalogue.ui.search_results.SOAPOperationListCellRenderer; -import org.apache.taverna.biocatalogue.ui.search_results.ServiceListCellRenderer; -import org.apache.taverna.workbench.MainWindow; - -import org.apache.log4j.Logger; -import org.biocatalogue.x2009.xml.rest.Registry; -import org.biocatalogue.x2009.xml.rest.ResourceLink; -import org.biocatalogue.x2009.xml.rest.RestMethod; -import org.biocatalogue.x2009.xml.rest.RestMethods; -import org.biocatalogue.x2009.xml.rest.Service; -import org.biocatalogue.x2009.xml.rest.ServiceProvider; -import org.biocatalogue.x2009.xml.rest.Services; -import org.biocatalogue.x2009.xml.rest.SoapOperation; -import org.biocatalogue.x2009.xml.rest.SoapOperations; -import org.biocatalogue.x2009.xml.rest.User; - -/** - * @author Sergejs Aleksejevs - */ -public class Resource -{ - /** - * A single point of definition of the types of resources that the BioCatalogue plugin - * "knows" about. This enum provides various details about resource types - - * display names for single items of that type, names of collections of items of that - * type, icons to represent the items of a particular type, etc. - * - * @author Sergejs Aleksejevs - */ - public static enum TYPE - { - // the order is important - all these types will appear in the user interface - // in the same order as listed here - @SuppressWarnings("serial") - SOAPOperation (SoapOperation.class, SoapOperations.class, BeansForJSONLiteAPI.SOAPOperationsIndex.class, "WSDL service", "WSDL services", - "WSDL services can be directly imported into the current workflow or Service Panel", - ResourceManager.getIconFromTaverna(ResourceManager.SOAP_OPERATION_ICON), true, true, true, false, true, true, true, true, - SOAPOperationListCellRenderer.class, BioCatalogueClient.API_SOAP_OPERATIONS_URL, - new HashMap<String,String>() {{ - }}, - new HashMap<String,String>(BioCatalogueClient.API_INCLUDE_ANCESTORS) {{ - put(BioCatalogueClient.API_PER_PAGE_PARAMETER, ""+BioCataloguePluginConstants.API_DEFAULT_REQUESTED_SOAP_OPERATION_COUNT_PER_PAGE); - }}, - BioCataloguePluginConstants.API_DEFAULT_REQUESTED_SOAP_OPERATION_COUNT_PER_PAGE, - BioCatalogueClient.API_SOAP_OPERATION_FILTERS_URL), - - @SuppressWarnings("serial") - RESTMethod (RestMethod.class, RestMethods.class, BeansForJSONLiteAPI.RESTMethodsIndex.class, "REST service", "REST services", - "REST services can be directly imported into the current workflow or Service Panel", - ResourceManager.getIconFromTaverna(ResourceManager.REST_METHOD_ICON), true, true, true, false, true, false, true, true, - RESTMethodListCellRenderer.class, BioCatalogueClient.API_REST_METHODS_URL, - new HashMap<String,String>() {{ - }}, - new HashMap<String,String>(BioCatalogueClient.API_INCLUDE_ANCESTORS) {{ - put(BioCatalogueClient.API_PER_PAGE_PARAMETER, ""+BioCataloguePluginConstants.API_DEFAULT_REQUESTED_REST_METHOD_COUNT_PER_PAGE); - }}, - BioCataloguePluginConstants.API_DEFAULT_REQUESTED_REST_METHOD_COUNT_PER_PAGE, - BioCatalogueClient.API_REST_METHOD_FILTERS_URL); //, - - // TODO - the following resource types have been disabled, as no actions for them can be done yet - // -- they are still to be implemented; if the following types are uncommented, they will be - // automatically searchable and visible in BioCatalogue Exploration tab; ListCellRenderers, however, - // would need to be added first. -// @SuppressWarnings("serial") -// Service (Service.class, Services.class, BeansForJSONLiteAPI.ServicesIndex.class, "Web service", "Web services", -// "<html>Web services represent collections of WSDL services or REST services.<br>" + -// "They cannot be directly imported into the current workflow or Service Panel,<br>" + -// "but they may contain much more information about individual WSDL or REST<br>" + -// "services and also provide some context for their usage.</html>", -// ResourceManager.getImageIcon(ResourceManager.SERVICE_ICON), true, true, true, false, false, false, true, -// ServiceListCellRenderer.class, BioCatalogueClient.API_SERVICES_URL, -// new HashMap<String,String>(BioCatalogueClient.API_INCLUDE_SUMMARY) {{ -// }}, -// new HashMap<String,String>() {{ -// put(BioCatalogueClient.API_PER_PAGE_PARAMETER, ""+BioCataloguePluginConstants.API_DEFAULT_REQUESTED_WEB_SERVICE_COUNT_PER_PAGE); -// }}, -// BioCataloguePluginConstants.API_DEFAULT_REQUESTED_WEB_SERVICE_COUNT_PER_PAGE, -// BioCatalogueClient.API_SERVICE_FILTERS_URL), -// -// ServiceProvider (ServiceProvider.class, ServiceProviders.class, BeansForJSONLiteAPI.ServiceProvidersIndex.class, "Service Provider", "Service Providers", "", -// ResourceManager.getImageIcon(ResourceManager.SERVICE_PROVIDER_ICON), false, false, false, false, false, false, false, -// ServiceProviderListCellRenderer.class, BioCatalogueClient.API_SERVICE_PROVIDERS_URL, -// new HashMap<String,String>() {{ -// }}, -// new HashMap<String,String>() {{ -// put(BioCatalogueClient.API_PER_PAGE_PARAMETER, ""+BioCataloguePluginConstants.API_DEFAULT_REQUESTED_SERVICE_PROVIDER_COUNT_PER_PAGE); -// }}, -// BioCataloguePluginConstants.API_DEFAULT_REQUESTED_SERVICE_PROVIDER_COUNT_PER_PAGE, -// null), -// -// User (User.class, Users.class, BeansForJSONLiteAPI.UsersIndex.class, "User", "Users", "", -// ResourceManager.getImageIcon(ResourceManager.USER_ICON), false, false, true, false, false, false, false, -// UserListCellRenderer.class, BioCatalogueClient.API_USERS_URL, -// new HashMap<String,String>() {{ -// }}, -// new HashMap<String,String>() {{ -// put(BioCatalogueClient.API_PER_PAGE_PARAMETER, ""+BioCataloguePluginConstants.API_DEFAULT_REQUESTED_USER_COUNT_PER_PAGE); -// }}, -// BioCataloguePluginConstants.API_DEFAULT_REQUESTED_USER_COUNT_PER_PAGE, -// BioCatalogueClient.API_USER_FILTERS_URL); - - - @SuppressWarnings("unchecked") - private Class xmlbeansGeneratedClass; - @SuppressWarnings("unchecked") - private Class xmlbeansGeneratedCollectionClass; - private Class<?> jsonLiteAPIBindingBeanClass; - private String resourceTypeName; - private String resourceCollectionName; - private String resourceTabTooltip; - private Icon icon; - private boolean defaultType; - private boolean suitableForTagSearch; - private boolean suitableForFiltering; - private boolean suitableForOpeningInPreviewBrowser; - private boolean suitableForAddingToServicePanel; - private boolean suitableForAddingToWorkflowDiagram; - private boolean suitableForHealthCheck; - private Class<? extends ListCellRenderer> resultListingCellRendererClass; - private String apiResourceCollectionIndex; - private Map<String,String> apiResourceCollectionIndexSingleExpandedResourceAdditionalParameters; - private Map<String,String> apiResourceCollectionIndexAdditionalParameters; - private int apiResourceCountPerIndexPage; - private String apiResourceCollectionFilters; - private final boolean suitableForAddingAllToServicePanel; - - @SuppressWarnings("unchecked") - TYPE(Class xmlbeansGeneratedClass, Class xmlbeansGeneratedCollectionClass, Class<?> jsonLiteAPIBindingBeanClass, - String resourceTypeName, String resourceCollectionName, String resourceTabTooltip, Icon icon, - boolean defaultType, boolean suitableForTagSearch, boolean suitableForFiltering, boolean suitableForOpeningInPreviewBrowser, - boolean suitableForAddingToServicePanel, boolean suitableForAddingAllToServicePanel, boolean suitableForAddingToWorkflowDiagram, - boolean suitableForHealthCheck, Class<? extends ListCellRenderer> resultListingCellRendererClass, - String apiResourceCollectionIndex, Map<String,String> apiResourceCollectionIndexSingleExpandedResourceAdditionalParameters, - Map<String,String> apiResourceCollectionIndexAdditionalParameters, int apiResourceCountPerIndexListingPage, - String apiResourceCollectionFilters) - { - this.xmlbeansGeneratedClass = xmlbeansGeneratedClass; - this.xmlbeansGeneratedCollectionClass = xmlbeansGeneratedCollectionClass; - this.jsonLiteAPIBindingBeanClass = jsonLiteAPIBindingBeanClass; - this.resourceTypeName = resourceTypeName; - this.resourceCollectionName = resourceCollectionName; - this.resourceTabTooltip = resourceTabTooltip; - this.icon = icon; - this.defaultType = defaultType; - this.suitableForTagSearch = suitableForTagSearch; - this.suitableForFiltering = suitableForFiltering; - this.suitableForOpeningInPreviewBrowser = suitableForOpeningInPreviewBrowser; - this.suitableForAddingToServicePanel = suitableForAddingToServicePanel; - this.suitableForAddingAllToServicePanel = suitableForAddingAllToServicePanel; - this.suitableForAddingToWorkflowDiagram = suitableForAddingToWorkflowDiagram; - this.suitableForHealthCheck = suitableForHealthCheck; - this.resultListingCellRendererClass = resultListingCellRendererClass; - this.apiResourceCollectionIndex = apiResourceCollectionIndex; - this.apiResourceCollectionIndexSingleExpandedResourceAdditionalParameters = apiResourceCollectionIndexSingleExpandedResourceAdditionalParameters; - this.apiResourceCollectionIndexAdditionalParameters = apiResourceCollectionIndexAdditionalParameters; - this.apiResourceCountPerIndexPage = apiResourceCountPerIndexListingPage; - this.apiResourceCollectionFilters = apiResourceCollectionFilters; - } - - - - @SuppressWarnings("unchecked") - public Class getXmlBeansGeneratedClass() { - return this.xmlbeansGeneratedClass; - } - - /** - * @return Class that represents collection of resources of this type, - * as represented by XmlBeans. - */ - @SuppressWarnings("unchecked") - public Class getXmlBeansGeneratedCollectionClass() { - return this.xmlbeansGeneratedCollectionClass; - } - - - /** - * @return Class of the bean to be used when de-serialising JSON - * data received from the 'Lite' BioCatalogue JSON API's index - * of resources of this type. - */ - public Class<?> getJsonLiteAPIBindingBeanClass() { - return this.jsonLiteAPIBindingBeanClass; - } - - - /** - * @return Display name of a type of a single item belonging to that type. - * (E.g. 'User' or 'Service') - */ - public String getTypeName() { - return this.resourceTypeName; - } - - /** - * @return Display name of a collection of items of this type. - * (E.g. 'Users' or 'Services'). - */ - public String getCollectionName() { - return this.resourceCollectionName; - } - - /** - * @return HTML-formatted string that can be used as a tooltip - * for tabs in BioCatalogue Exploration tab of BioCatalogue - * perspective. - */ - public String getCollectionTabTooltip() { - return this.resourceTabTooltip; - } - - /** - * @return Small icon that represents this resource type. - */ - public Icon getIcon() { - return this.icon; - } - - /** - * @return <code>true</code> - if used for search by default;<br/> - * <code>false</code> - otherwise. - */ - public boolean isDefaultSearchType() { - return this.defaultType; - } - - /** - * Resources not of all resource types can be searched for by tags (although every resource type - * can be searched for by a free-text query). - * - * @return <code>true</code> if resources of this type can be searched for by tags,<br/> - * <code>false</code> otherwise. - */ - public boolean isSuitableForTagSearch() { - return this.suitableForTagSearch; - } - - /** - * Not all resource types are suitable for filtering - for example, there are no - * filters available for service providers in BioCatalogue. - * - * @return <code>true</code> indicates that tab dedicated to displaying search - * results of this resource type can have a filter tree. - */ - public boolean isSuitableForFiltering() { - return this.suitableForFiltering; - } - - /** - * @return <code>true</code> indicates that "Preview" option can be made - * available for items of this type, as preview factory would be implemented - * for such resources. - */ - public boolean isSuitableForOpeningInPreviewBrowser() { - return this.suitableForOpeningInPreviewBrowser; - } - - public boolean isSuitableForAddingToServicePanel() { - return this.suitableForAddingToServicePanel; - } - - public boolean isSuitableForAddingToWorkflowDiagram() { - return this.suitableForAddingToWorkflowDiagram; - } - - /** - * @return <code>true</code> indicates that monitoring data can be obtained - * from BioCatalougue for this type of resource. - */ - public boolean isSuitableForHealthCheck() { - return this.suitableForHealthCheck; - } - - - /** - * This method helps to defer instantiation of ListCellRenderers - * until they are first accessed - it is because construction of - * the renderers requires knowledge of all available resource types, - * therefore they cannot be instantiated until after Resource class - * has been fully loaded. - * - * @return {@link ListCellRenderer} for this type of resources or - * <code>null</code> if an error has occurred during - * instantiation of required renderer. - */ - public ListCellRenderer getResultListingCellRenderer() { - try { - return this.resultListingCellRendererClass.newInstance(); - } - catch (Exception e) { - Logger.getLogger(Resource.class).error("Unable to instantiate search results ListCellRenderer for " + - this.getCollectionName(), e); - JOptionPane.showMessageDialog(MainWindow.getMainWindow(), - "Taverna was unable to instantiate ListCellRenderer for " + this.getCollectionName() + ".\n\n" + - "This may make Taverna unstable.", "Service Catalogue Plugin", JOptionPane.ERROR_MESSAGE); - return null; - } - } - - /** - * @return URL in the BioCatalogue API that provides an index of the collection of - * all resources of this type. - */ - public String getAPIResourceCollectionIndex() { - return apiResourceCollectionIndex; - } - - /** - * @return Keys and values for any additional URL parameters that need to be included into the - * BioCatalogue API requests that are made in order to fetch all necessary additional - * details for a *single* expanded entry in the search results listing. - */ - public Map<String,String> getResourceCollectionIndexSingleExpandedResourceAdditionalParameters() { - return apiResourceCollectionIndexSingleExpandedResourceAdditionalParameters; - } - - /** - * @return Keys and values for any additional URL parameters that need to be included into the - * requests sent to filtered indexes of collections of this type in the BioCatalogue API. - */ - public Map<String,String> getAPIResourceCollectionIndexAdditionalParameters() { - return apiResourceCollectionIndexAdditionalParameters; - } - - /** - * @return Number of resources of this type that one page of search results from - * the API will contain. - */ - public int getApiResourceCountPerIndexPage() { - return apiResourceCountPerIndexPage; - } - - /** - * @return BioCatalogue API URL that provides a collection of filters for the - * resource of this type. - */ - public String getAPIResourceCollectionFiltersURL() { - return apiResourceCollectionFilters; - } - - - /** - * This method is useful for adding / removing tabs into the results view - provides - * and index for the tabbed view to place a tab, relevant to a particular resource type. - * This helps to preserve the order of tabs after adding / removing them. - * - * @return Zero-based index of this resource type in the <code>RESOURCE_TYPE</code> enum or - * <code>-1</code> if not found (which is impossible under normal conditions). - */ - public int index() - { - TYPE[] values = TYPE.values(); - for (int i = 0; i < values.length; i++) { - if (this == values[i]) { - return (i); - } - } - return (-1); - } - - - - /** - * @return the suitableForAddingAllToServicePanel - */ - public boolean isSuitableForAddingAllToServicePanel() { - return suitableForAddingAllToServicePanel; - } - - }; - - - - // ----------------------------- RESOURCE CLASS ------------------------------- - - - // current resource data - private final TYPE resourceType; - private final String resourceURL; - private final String resourceTitle; - - - public Resource(String resourceURL, String resourceTitle) - { - this.resourceURL = extractPureResourceURLFromPreviewActionCommand(resourceURL); - this.resourceTitle = resourceTitle; - this.resourceType = getResourceTypeFromResourceURL(resourceURL); - } - - public TYPE getType() { - return resourceType; - } - - public String getURL() { - return resourceURL; - } - - public String getTitle() { - return resourceTitle; - } - - - - public boolean equals(Object other) - { - if (other instanceof Resource) - { - // compare by all components - Resource otherRes = (Resource)other; - return (this.resourceType == otherRes.resourceType && - this.resourceTitle.equals(otherRes.resourceTitle) && - this.resourceURL.equals(otherRes.resourceURL)); - } - else { - // other object is of different type - return (false); - } - } - - - /** - * @param url Either URL of the resource in BioCatalogue or preview action command - * ({@link BioCataloguePluginConstants#ACTION_PREVIEW_RESOURCE}). - * @return Type of this resource according to the BioCatalogue URL that points to this - * resource or <code>null</code> if the type of the resource couldn't be determined. - */ - public static TYPE getResourceTypeFromResourceURL(String url) - { - String pureURL = extractPureResourceURLFromPreviewActionCommand(url); - -// if (pureURL.startsWith(BioCatalogueClient.API_SERVICES_URL)) return(TYPE.Service); -// else - if (pureURL.startsWith(BioCatalogueClient.API_SOAP_OPERATIONS_URL)) { - return(TYPE.SOAPOperation); - } - if (pureURL.startsWith(BioCatalogueClient.API_REST_METHODS_URL)) { - return(TYPE.RESTMethod); - } -// else if (pureURL.startsWith(BioCatalogueClient.API_SERVICE_PROVIDERS_URL)) return(TYPE.ServiceProvider); // TODO - re-enable these lines as soon as ServiceProvider and User type are started to be used -// else if (pureURL.startsWith(BioCatalogueClient.API_USERS_URL)) return(TYPE.User); - return (null); - } - - - /** - * @param previewActionCommand Either resource preview action command or a 'pure' resource URL already. - * @return A "pure" resource URL in BioCatalogue with the action prefix - * ({@link BioCataloguePluginConstants#ACTION_PREVIEW_RESOURCE}) removed. - */ - public static String extractPureResourceURLFromPreviewActionCommand(String previewActionCommand) - { - return (previewActionCommand.startsWith(BioCataloguePluginConstants.ACTION_PREVIEW_RESOURCE) ? - previewActionCommand.substring(BioCataloguePluginConstants.ACTION_PREVIEW_RESOURCE.length()) : - previewActionCommand); - } - - - /** - * @param resource - * @return Display name for listings of items. - */ - public static String getDisplayNameForResource(ResourceLink resource) - { - if (resource instanceof SoapOperation) { - return ((SoapOperation)resource).getName(); - } - else if (resource instanceof RestMethod) - { - RestMethod restMethod = (RestMethod)resource; - return (restMethod.getName() == null || restMethod.getName().length() == 0 ? - restMethod.getEndpointLabel() : - restMethod.getName()); - } - else if (resource instanceof Service) { - return ((Service)resource).getName(); - } - else if (resource instanceof ServiceProvider) { - return ((ServiceProvider)resource).getName(); - } - else if (resource instanceof User) { - return ((User)resource).getName(); - } - else if (resource instanceof Registry) { - return ((Registry)resource).getName(); - } - else if (resource instanceof LoadingResource) { - return (resource.getResourceName()); - } - else { - return ("ERROR: ITEM NOT RECOGNISED - Item is of known generic type from the Service Catalogue Plugin, but not specifically recognised" + resource.toString()); - } - } - -}
