ref 13024: DataMiner - The service must support the https protocol
https://support.d4science.org/issues/13024 Updated DataMiner now support https git-svn-id: https://svn.d4science.research-infrastructures.eu/gcube/trunk/data-analysis/wps@174937 82a268e6-3cf1-43bd-a215-b396298e98cf
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<classpathentry kind="con" path="org.eclipse.m2e.MAVEN2_CLASSPATH_CONTAINER">
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<attributes>
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<attribute name="maven.pomderived" value="true"/>
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<attribute name="org.eclipse.jst.component.dependency" value="/WEB-INF/lib"/>
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</attributes>
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</classpathentry>
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<classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER/org.eclipse.jdt.internal.debug.ui.launcher.StandardVMType/JavaSE-1.8">
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27
.project
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.project
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@ -5,11 +5,31 @@
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<projects>
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</projects>
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<buildSpec>
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<buildCommand>
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<name>org.eclipse.wst.common.project.facet.core.builder</name>
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<arguments>
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</arguments>
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</buildCommand>
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<buildCommand>
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<name>org.eclipse.jdt.core.javabuilder</name>
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<arguments>
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</arguments>
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</buildCommand>
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<buildCommand>
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<name>org.eclipse.wst.validation.validationbuilder</name>
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<arguments>
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</arguments>
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</buildCommand>
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<buildCommand>
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<name>de.walware.statet.r.builders.RSupport</name>
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<arguments>
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</arguments>
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</buildCommand>
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<buildCommand>
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<name>de.walware.docmlet.tex.builders.Tex</name>
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<arguments>
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</arguments>
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</buildCommand>
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<buildCommand>
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<name>org.eclipse.m2e.core.maven2Builder</name>
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<arguments>
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@ -17,7 +37,14 @@
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</buildCommand>
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</buildSpec>
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<natures>
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<nature>org.eclipse.jem.workbench.JavaEMFNature</nature>
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<nature>org.eclipse.wst.common.modulecore.ModuleCoreNature</nature>
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<nature>org.eclipse.jdt.core.javanature</nature>
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<nature>org.eclipse.m2e.core.maven2Nature</nature>
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<nature>org.eclipse.wst.common.project.facet.core.nature</nature>
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<nature>org.eclipse.wst.jsdt.core.jsNature</nature>
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<nature>de.walware.statet.base.StatetNature</nature>
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<nature>de.walware.statet.r.RNature</nature>
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<nature>de.walware.docmlet.tex.natures.Tex</nature>
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</natures>
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</projectDescription>
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@ -0,0 +1,13 @@
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<?xml version="1.0" encoding="UTF-8"?>
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<classpath>
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<classpathentry excluding="**/bower_components/*|**/node_modules/*|**/*.min.js" kind="src" path="src/main/webapp"/>
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<classpathentry kind="src" path="target/m2e-wtp/web-resources"/>
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<classpathentry kind="con" path="org.eclipse.wst.jsdt.launching.JRE_CONTAINER"/>
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<classpathentry kind="con" path="org.eclipse.wst.jsdt.launching.WebProject">
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<attributes>
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<attribute name="hide" value="true"/>
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</attributes>
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</classpathentry>
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<classpathentry kind="con" path="org.eclipse.wst.jsdt.launching.baseBrowserLibrary"/>
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<classpathentry kind="output" path=""/>
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</classpath>
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@ -1,5 +1,8 @@
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eclipse.preferences.version=1
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org.eclipse.jdt.core.compiler.codegen.inlineJsrBytecode=enabled
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org.eclipse.jdt.core.compiler.codegen.targetPlatform=1.8
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org.eclipse.jdt.core.compiler.compliance=1.8
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org.eclipse.jdt.core.compiler.problem.assertIdentifier=error
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org.eclipse.jdt.core.compiler.problem.enumIdentifier=error
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org.eclipse.jdt.core.compiler.problem.forbiddenReference=warning
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org.eclipse.jdt.core.compiler.source=1.8
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@ -0,0 +1,13 @@
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<?xml version="1.0" encoding="UTF-8"?><project-modules id="moduleCoreId" project-version="1.5.0">
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<wb-module deploy-name="wps">
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<wb-resource deploy-path="/" source-path="/target/m2e-wtp/web-resources"/>
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<wb-resource deploy-path="/" source-path="/src/main/webapp" tag="defaultRootSource"/>
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<wb-resource deploy-path="/WEB-INF/classes" source-path="/src/main/java"/>
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<wb-resource deploy-path="/WEB-INF/classes" source-path="/src/main/resources"/>
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<dependent-module archiveName="dataminer-1.5.6-SNAPSHOT.jar" deploy-path="/WEB-INF/lib" handle="module:/resource/dataminer/dataminer">
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<dependency-type>uses</dependency-type>
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</dependent-module>
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<property name="context-root" value="wps"/>
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<property name="java-output-path" value="/wps/target/classes"/>
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</wb-module>
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</project-modules>
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@ -0,0 +1,7 @@
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<root>
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<facet id="jst.jaxrs">
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<node name="libprov">
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<attribute name="provider-id" value="jaxrs-no-op-library-provider"/>
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</node>
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</facet>
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</root>
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@ -0,0 +1,8 @@
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<?xml version="1.0" encoding="UTF-8"?>
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<faceted-project>
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<fixed facet="wst.jsdt.web"/>
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<installed facet="java" version="1.8"/>
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<installed facet="jst.web" version="3.0"/>
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<installed facet="jst.jaxrs" version="2.0"/>
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<installed facet="wst.jsdt.web" version="1.0"/>
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</faceted-project>
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@ -0,0 +1 @@
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org.eclipse.wst.jsdt.launching.baseBrowserLibrary
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@ -0,0 +1 @@
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Window
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@ -0,0 +1,2 @@
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disabled=06target
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eclipse.preferences.version=1
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@ -1,7 +1,12 @@
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<ReleaseNotes>
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<Changeset component="org.gcube.data-analysis.wps.1-1-3"
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date="2018-12-13">
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<Change>Added https support [ticket #13024]</Change>
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</Changeset>
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<Changeset component="org.gcube.data-analysis.wps.1-1-0"
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date="2017-09-24">
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<Change>Dynamic adding, removing and updating of algorithms added</Change>
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<Change>Dynamic adding, removing and updating of algorithms added
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</Change>
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<Change>Moved to SocialNetworkingService 2.0</Change>
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</Changeset>
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<Changeset component="org.gcube.data-analysis.wps.1-0-0"
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@ -1,7 +1,7 @@
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<?xml version="1.0" encoding="utf-8"?>
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<web-app xmlns="http://java.sun.com/xml/ns/j2ee" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
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xsi:schemaLocation="http://java.sun.com/xml/ns/j2ee http://java.sun.com/xml/ns/j2ee/web-app_2_4.xsd"
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version="2.4">
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xsi:schemaLocation="http://java.sun.com/xml/ns/j2ee http://java.sun.com/xml/ns/j2ee/web-app_3_0.xsd"
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version="3.0">
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<display-name>52°North Web Processing Service, Git:
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1665e1b7b2188755161d4f0f3a6acf562d0444e1 @ 2015-03-21 00:30:20
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</display-name>
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2
pom.xml
2
pom.xml
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@ -3,7 +3,7 @@
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<modelVersion>4.0.0</modelVersion>
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<groupId>org.gcube.data-analysis</groupId>
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<artifactId>wps</artifactId>
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<version>1.1.2-SNAPSHOT</version>
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<version>1.1.3-SNAPSHOT</version>
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<name>WPS</name>
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<parent>
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@ -23,42 +23,46 @@ import org.slf4j.LoggerFactory;
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public class GetCapabilitiesBuilder {
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public static String processString = "<wps:Process wps:processVersion=\"1.1.0\">\n\t<ows:Identifier>#CLASS#</ows:Identifier>\n\t<ows:Title>#TITLE#</ows:Title>\n</wps:Process>";
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private static final Logger LOGGER= LoggerFactory.getLogger(GetCapabilitiesBuilder.class);
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public String getClassification(String algorithmName, ConfigurationManager configManager) throws Exception{
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//get algorithms classification:
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LOGGER.debug("Searching for a classification of "+algorithmName);
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HashMap<String, List<String>> algorithmsClassification = ProcessorsFactory.getAllFeaturesUser(configManager.getConfig());
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private static final Logger LOGGER = LoggerFactory.getLogger(GetCapabilitiesBuilder.class);
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public String getClassification(String algorithmName, ConfigurationManager configManager) throws Exception {
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// get algorithms classification:
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LOGGER.debug("Searching for a classification of " + algorithmName);
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HashMap<String, List<String>> algorithmsClassification = ProcessorsFactory
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.getAllFeaturesUser(configManager.getConfig());
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String rightClassification = "Others";
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for (String classification:algorithmsClassification.keySet()){
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for (String classification : algorithmsClassification.keySet()) {
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List<String> algorithms = algorithmsClassification.get(classification);
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if (algorithms.contains(algorithmName)){
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LOGGER.debug("Found classification"+classification);
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return classification;
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if (algorithms.contains(algorithmName)) {
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LOGGER.debug("Found classification" + classification);
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return classification;
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}
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}
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LOGGER.debug("No classification found for "+algorithmName);
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LOGGER.debug("No classification found for " + algorithmName);
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return rightClassification;
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}
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public String buildGetCapabilities(Map<String, String[]> parameters) throws Exception {
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LinkedHashMap<String, Object> basicInputs = new LinkedHashMap<String, Object>();
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//DONE get scope and username from SmartGears to build the get capabilities
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/* OLD CODE
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if (parameters != null) {
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if (parameters.get(ConfigurationManager.scopeParameter) != null)
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basicInputs.put(ConfigurationManager.scopeParameter, parameters.get(ConfigurationManager.scopeParameter)[0]);
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if (parameters.get(ConfigurationManager.usernameParameter) != null)
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basicInputs.put(ConfigurationManager.usernameParameter, parameters.get(ConfigurationManager.usernameParameter)[0]);
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} else {// case for testing purposes only
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if (AbstractEcologicalEngineMapper.simulationMode){
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basicInputs.put(ConfigurationManager.scopeParameter, ConfigurationManager.defaultScope);
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basicInputs.put(ConfigurationManager.usernameParameter, ConfigurationManager.defaultUsername);
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}
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}
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*/
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// DONE get scope and username from SmartGears to build the get
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// capabilities
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/*
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* OLD CODE if (parameters != null) { if
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* (parameters.get(ConfigurationManager.scopeParameter) != null)
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* basicInputs.put(ConfigurationManager.scopeParameter,
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* parameters.get(ConfigurationManager.scopeParameter)[0]); if
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* (parameters.get(ConfigurationManager.usernameParameter) != null)
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* basicInputs.put(ConfigurationManager.usernameParameter,
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* parameters.get(ConfigurationManager.usernameParameter)[0]); } else
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* {// case for testing purposes only if
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* (AbstractEcologicalEngineMapper.simulationMode){
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* basicInputs.put(ConfigurationManager.scopeParameter,
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* ConfigurationManager.defaultScope);
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* basicInputs.put(ConfigurationManager.usernameParameter,
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* ConfigurationManager.defaultUsername); } }
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*/
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ConfigurationManager configManager = new ConfigurationManager();
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TokenManager tokenm = new TokenManager();
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tokenm.getCredentials();
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@ -68,63 +72,70 @@ public class GetCapabilitiesBuilder {
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basicInputs.put(ConfigurationManager.scopeParameter, scope);
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basicInputs.put(ConfigurationManager.usernameParameter, username);
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basicInputs.put(ConfigurationManager.tokenParameter, token);
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configManager.configAlgorithmEnvironment(basicInputs);
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LOGGER.debug("Initializing Capabilities Skeleton in scope " + configManager.getScope() + " with user " + configManager.getUsername());
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LOGGER.debug("Initializing Capabilities Skeleton in scope " + configManager.getScope() + " with user "
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+ configManager.getUsername());
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InputStream is = this.getClass().getClassLoader().getResourceAsStream("templates/wpsCapabilitiesSkeleton.xml");
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String stringTemplate = IOUtils.toString(is, "UTF-8");
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//TODO: GET HOSTNAME AND PORT from container
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// TODO: GET HOSTNAME AND PORT from container
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String protocol = WPSConfig.getInstance().getWPSConfig().getServer().getProtocol();
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String host = WPSConfig.getInstance().getWPSConfig().getServer().getHostname();
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String port = WPSConfig.getInstance().getWPSConfig().getServer().getHostport();
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stringTemplate = stringTemplate.replace("#HOST#", host).replace("#PORT#", port);
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stringTemplate = stringTemplate.replace("#PROTOCOL#", protocol).replace("#HOST#", host).replace("#PORT#", port);
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LOGGER.debug("Protocol: "+protocol);
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LOGGER.debug("Host: " + host);
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LOGGER.debug("Port: " + port);
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LOGGER.debug("Host: " + host + " Port: " + port);
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LinkedHashMap<String, String> allalgorithms = new LinkedHashMap<String, String>();
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/*
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String packageS = "org.gcube.dataanalysis.wps.statisticalmanager.synchserver.mappedclasses";
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List<Class<?>> classes = null;
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try{
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LOGGER.debug("Taking classes from /classes");
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classes = GetCapabilitiesChecker.find(packageS);
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}catch(Exception e){
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LOGGER.debug("Taking classes from the Jar");
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classes=GetCapabilitiesChecker.getClassesInSamePackageFromJar(packageS);
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}*/
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LOGGER.info("using classloader class {} ",Thread.currentThread().getContextClassLoader().getClass().getSimpleName());
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Set<Class<?>> algorithmsClass = GcubeAlgorithmRepository.getAllAlgorithms();
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LOGGER.info("class found with annotation Algorithm are {}",algorithmsClass.size());
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* String packageS =
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* "org.gcube.dataanalysis.wps.statisticalmanager.synchserver.mappedclasses";
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* List<Class<?>> classes = null; try{
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* LOGGER.debug("Taking classes from /classes"); classes =
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* GetCapabilitiesChecker.find(packageS); }catch(Exception e){
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* LOGGER.debug("Taking classes from the Jar");
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* classes=GetCapabilitiesChecker.getClassesInSamePackageFromJar(
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* packageS); }
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*/
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LOGGER.info("using classloader class {} ",
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Thread.currentThread().getContextClassLoader().getClass().getSimpleName());
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Set<Class<?>> algorithmsClass = GcubeAlgorithmRepository.getAllAlgorithms();
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LOGGER.info("class found with annotation Algorithm are {}", algorithmsClass.size());
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for (Class<?> classfind : algorithmsClass) {
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org.n52.wps.algorithm.annotation.Algorithm algorithmInfo = classfind.getAnnotation(org.n52.wps.algorithm.annotation.Algorithm.class);
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org.n52.wps.algorithm.annotation.Algorithm algorithmInfo = classfind
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.getAnnotation(org.n52.wps.algorithm.annotation.Algorithm.class);
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if (algorithmInfo != null) {
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LOGGER.debug("Retrieving local declared Algorithm: " + algorithmInfo.title());
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allalgorithms.put(algorithmInfo.title(), classfind.getName());
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}
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}
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}
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LOGGER.debug("Getting algorithms from the infrastructure");
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InfrastructureDialoguer dialoguer = new InfrastructureDialoguer(configManager.getScope());
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List<String> algorithmsInScope = dialoguer.getAlgorithmsInScope();
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LOGGER.debug("Found {} algorithms in scope {} ",algorithmsInScope.size() ,ScopeProvider.instance.get());
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LOGGER.debug("Found {} algorithms in scope {} ", algorithmsInScope.size(), ScopeProvider.instance.get());
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StringBuffer capabilities = new StringBuffer();
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||||
//TO eliminate duplicate coming from IS
|
||||
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||||
// TO eliminate duplicate coming from IS
|
||||
Set<String> algorithmsSet = new HashSet<String>(algorithmsInScope);
|
||||
algorithmsSet.addAll(dialoguer.getPrivateAlgorithmsInScope(AuthorizationProvider.instance.get().getClient().getId()));
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||||
|
||||
for (String algorithmInScope : algorithmsSet ) {
|
||||
algorithmsSet.addAll(
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dialoguer.getPrivateAlgorithmsInScope(AuthorizationProvider.instance.get().getClient().getId()));
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||||
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||||
for (String algorithmInScope : algorithmsSet) {
|
||||
String classAlgorithm = allalgorithms.get(algorithmInScope);
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||||
if (classAlgorithm != null) {
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||||
LOGGER.debug("Approving " + classAlgorithm + " to capabilities ");
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||||
String algorithmTitle = getClassification(algorithmInScope, configManager)+":"+algorithmInScope;
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||||
// String algorithmTitle = algorithmInScope;
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||||
capabilities.append(processString.replace("#TITLE#", algorithmTitle).replace("#CLASS#", classAlgorithm));
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||||
String algorithmTitle = getClassification(algorithmInScope, configManager) + ":" + algorithmInScope;
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||||
// String algorithmTitle = algorithmInScope;
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||||
capabilities
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||||
.append(processString.replace("#TITLE#", algorithmTitle).replace("#CLASS#", classAlgorithm));
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||||
}
|
||||
}
|
||||
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||||
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@ -133,6 +144,4 @@ public class GetCapabilitiesBuilder {
|
|||
return stringTemplate;
|
||||
}
|
||||
|
||||
|
||||
|
||||
}
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||||
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@ -9,23 +9,23 @@ open-source software toolkit used for building and operating Hybrid Data
|
|||
Infrastructures enabling the dynamic deployment of Virtual Research Environments
|
||||
by favouring the realisation of reuse oriented policies.
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||||
|
||||
The projects leading to this software have received funding from a series of
|
||||
European Union programmes including:
|
||||
* the Sixth Framework Programme for Research and Technological Development -
|
||||
DILIGENT (grant no. 004260);
|
||||
* the Seventh Framework Programme for research, technological development and
|
||||
demonstration - D4Science (grant no. 212488), D4Science-II (grant no.
|
||||
239019),ENVRI (grant no. 283465), EUBrazilOpenBio (grant no. 288754), iMarine
|
||||
(grant no. 283644);
|
||||
* the H2020 research and innovation programme - BlueBRIDGE (grant no. 675680),
|
||||
EGIEngage (grant no. 654142), ENVRIplus (grant no. 654182), Parthenos (grant
|
||||
no. 654119), SoBigData (grant no. 654024), AGINFRA PLUS (grant no. 731001).
|
||||
The projects leading to this software have received funding from a series of
|
||||
European Union programmes including:
|
||||
* the Sixth Framework Programme for Research and Technological Development -
|
||||
DILIGENT (grant no. 004260);
|
||||
* the Seventh Framework Programme for research, technological development and
|
||||
demonstration - D4Science (grant no. 212488), D4Science-II (grant no.
|
||||
239019),ENVRI (grant no. 283465), EUBrazilOpenBio (grant no. 288754), iMarine
|
||||
(grant no. 283644);
|
||||
* the H2020 research and innovation programme - BlueBRIDGE (grant no. 675680),
|
||||
EGIEngage (grant no. 654142), ENVRIplus (grant no. 654182), Parthenos (grant
|
||||
no. 654119), SoBigData (grant no. 654024);
|
||||
|
||||
|
||||
Version
|
||||
--------------------------------------------------
|
||||
|
||||
1.1.1-SNAPSHOT (2018-10-12)
|
||||
1.1.3-SNAPSHOT (2018-12-17)
|
||||
|
||||
Please see the file named "changelog.xml" in this directory for the release notes.
|
||||
|
||||
|
|
|
|||
|
|
@ -1,7 +1,12 @@
|
|||
<ReleaseNotes>
|
||||
<Changeset component="org.gcube.data-analysis.wps.1-1-3"
|
||||
date="2018-12-13">
|
||||
<Change>Added https support [ticket #13024]</Change>
|
||||
</Changeset>
|
||||
<Changeset component="org.gcube.data-analysis.wps.1-1-0"
|
||||
date="2017-09-24">
|
||||
<Change>Dynamic adding, removing and updating of algorithms added</Change>
|
||||
<Change>Dynamic adding, removing and updating of algorithms added
|
||||
</Change>
|
||||
<Change>Moved to SocialNetworkingService 2.0</Change>
|
||||
</Changeset>
|
||||
<Changeset component="org.gcube.data-analysis.wps.1-0-0"
|
||||
|
|
|
|||
|
|
@ -9,7 +9,7 @@
|
|||
<baseDirectory>/</baseDirectory>
|
||||
<fileSets>
|
||||
<fileSet>
|
||||
<directory>/home/lucio/workspace/imarine/wps/distro</directory>
|
||||
<directory>/home/giancarlo/workspaceDataMinerService/wps/distro</directory>
|
||||
<outputDirectory>/</outputDirectory>
|
||||
<useDefaultExcludes>true</useDefaultExcludes>
|
||||
<includes>
|
||||
|
|
|
|||
|
|
@ -10,11 +10,11 @@
|
|||
<Packages>
|
||||
<Software>
|
||||
<Name>wps</Name>
|
||||
<Version>1.1.1-SNAPSHOT</Version>
|
||||
<Version>1.1.3-SNAPSHOT</Version>
|
||||
<MavenCoordinates>
|
||||
<groupId>org.gcube.data-analysis</groupId>
|
||||
<artifactId>wps</artifactId>
|
||||
<version>1.1.1-SNAPSHOT</version>
|
||||
<version>1.1.3-SNAPSHOT</version>
|
||||
</MavenCoordinates>
|
||||
<Files>
|
||||
<File>wps.jar</File>
|
||||
|
|
|
|||
|
|
@ -1,7 +1,7 @@
|
|||
<?xml version="1.0" encoding="utf-8"?>
|
||||
<web-app xmlns="http://java.sun.com/xml/ns/j2ee" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
|
||||
xsi:schemaLocation="http://java.sun.com/xml/ns/j2ee http://java.sun.com/xml/ns/j2ee/web-app_2_4.xsd"
|
||||
version="2.4">
|
||||
xsi:schemaLocation="http://java.sun.com/xml/ns/j2ee http://java.sun.com/xml/ns/j2ee/web-app_3_0.xsd"
|
||||
version="3.0">
|
||||
<display-name>52°North Web Processing Service, Git:
|
||||
1665e1b7b2188755161d4f0f3a6acf562d0444e1 @ 2015-03-21 00:30:20
|
||||
</display-name>
|
||||
|
|
|
|||
Loading…
Reference in New Issue