git-svn-id: https://svn.d4science.research-infrastructures.eu/gcube/trunk/data-analysis/dataminer-pool-manager@146429 82a268e6-3cf1-43bd-a215-b396298e98cf
This commit is contained in:
Nunzio Andrea Galante
parent
45fb751fc2
commit
da8f4bbd66
6
pom.xml
6
pom.xml
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@ -24,6 +24,12 @@
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</properties>
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<dependencies>
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<dependency>
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<groupId>org.gcube.core</groupId>
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<artifactId>common-smartgears</artifactId>
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<!-- <version>[1.0.0-SNAPSHOT,1.2.7)</version>-->
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<scope>provided</scope>
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</dependency>
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<dependency>
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<groupId>commons-io</groupId>
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<artifactId>commons-io</artifactId>
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@ -0,0 +1,22 @@
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package org.gcube.dataanalysis.dataminer.poolmanager.datamodel;
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public class AlgoResource ***REMOVED***
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protected String id;
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public AlgoResource() ***REMOVED***
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***REMOVED***
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public AlgoResource(String id) ***REMOVED***
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this.id = id;
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***REMOVED***
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public String getId() ***REMOVED***
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return this.id;
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***REMOVED***
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public void setId(String id) ***REMOVED***
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this.id = id;
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***REMOVED***
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***REMOVED***
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@ -3,8 +3,35 @@ package org.gcube.dataanalysis.dataminer.poolmanager.datamodel;
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import java.util.Collection;
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import java.util.Vector;
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public class Algorithm ***REMOVED***
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public class Algorithm extends AlgoResource ***REMOVED***
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***REMOVED***
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public int hashCode() ***REMOVED***
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final int prime = 31;
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int result = 1;
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result = prime * result + ((id == null) ? 0 : id.hashCode());
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return result;
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***REMOVED***
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***REMOVED***
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public boolean equals(Object obj) ***REMOVED***
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if (this == obj)
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return true;
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if (obj == null)
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return false;
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if (getClass() != obj.getClass())
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return false;
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Algorithm other = (Algorithm) obj;
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if (id == null) ***REMOVED***
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if (other.id != null)
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return false;
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***REMOVED*** else if (!id.equals(other.id))
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return false;
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return true;
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***REMOVED***
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private String name;
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private String description;
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@ -27,6 +27,7 @@
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***REMOVED***
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***REMOVED***
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***REMOVED***
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***REMOVED***
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***REMOVED***
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@ -47,6 +48,12 @@ public interface PoolManager ***REMOVED***
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String getScriptFromURL(URL logId) throws IOException;
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URL getURLfromWorkerLog(String logUrl) throws MalformedURLException, UnknownHostException;
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URL getURLfromWorkerLog(String logUrl) throws MalformedURLException, UnknownHostException;
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void addAlgToIs(Algorithm algo);
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Set<Algorithm> getAlgoFromIs();
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Algorithm getAlgoById(String id);
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***REMOVED***
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@ -262,16 +262,29 @@
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***REMOVED******REMOVED***
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package org.gcube.dataanalysis.dataminer.poolmanager.service;
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import static org.gcube.resources.discovery.icclient.ICFactory.clientFor;
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import static org.gcube.resources.discovery.icclient.ICFactory.queryFor;
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import java.io.BufferedReader;
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import java.io.File;
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***REMOVED***
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import java.io.InputStreamReader;
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import java.io.StringWriter;
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***REMOVED***
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***REMOVED***
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import java.net.URLConnection;
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***REMOVED***
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import java.util.Arrays;
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import java.util.HashSet;
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***REMOVED***
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***REMOVED***
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import java.util.UUID;
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import org.gcube.common.resources.gcore.GenericResource;
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import org.gcube.common.resources.gcore.HostingNode;
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import org.gcube.common.resources.gcore.Resources;
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import org.gcube.common.resources.gcore.Software.Profile.Dependency;
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***REMOVED***
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import org.gcube.dataanalysis.dataminer.poolmanager.ansiblebridge.AnsibleBridge;
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import org.gcube.dataanalysis.dataminer.poolmanager.clients.ISClient;
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***REMOVED***
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@ -280,289 +293,390 @@ import org.gcube.dataanalysis.dataminer.poolmanager.datamodel.Cluster;
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import org.gcube.dataanalysis.dataminer.poolmanager.datamodel.Host;
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import org.gcube.dataanalysis.dataminer.poolmanager.process.AlgorithmPackageParser;
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import org.gcube.dataanalysis.dataminer.poolmanager.rest.PoolManager;
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import org.gcube.informationsystem.publisher.AdvancedScopedPublisher;
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import org.gcube.informationsystem.publisher.RegistryPublisherFactory;
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import org.gcube.informationsystem.publisher.ScopedPublisher;
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import org.gcube.informationsystem.publisher.exception.RegistryNotFoundException;
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import org.gcube.resources.discovery.client.api.DiscoveryClient;
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import org.gcube.resources.discovery.client.queries.api.SimpleQuery;
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***REMOVED***
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***REMOVED***
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public class DataminerPoolManager implements PoolManager ***REMOVED***
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private static final Logger LOGGER = LoggerFactory.getLogger(DataminerPoolManager.class);
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***REMOVED*** static Collection<Algorithm> algorithms;
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***REMOVED***
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***REMOVED*** static Collection<AlgorithmSet> sets;
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***REMOVED***
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***REMOVED*** static ***REMOVED***
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***REMOVED*** algorithms = new Vector<>();
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** public DataminerPoolManager() ***REMOVED***
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** /**
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***REMOVED*** * Add a new algorithm to the set of known ones. No further action is expected
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***REMOVED*** * on the pool.
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***REMOVED*** */
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***REMOVED*** public void publishAlgorithm(Algorithm algorithm) ***REMOVED***
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***REMOVED*** algorithms.add(algorithm);
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** /**
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***REMOVED*** * Re-deploy the given algorithm wherever it's installed
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***REMOVED*** *
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***REMOVED*** * @param algorithm
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***REMOVED*** */
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***REMOVED*** /*
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***REMOVED*** * public void updateAlgorithm(Algorithm algorithm) ***REMOVED*** ***REMOVED*** TODO implement this ***REMOVED***
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***REMOVED*** */
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***REMOVED***
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***REMOVED*** /**
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***REMOVED*** * Add the give algorithm to the given set
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***REMOVED*** *
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***REMOVED*** * @param algorithmId
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***REMOVED*** * @param setId
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***REMOVED*** */
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***REMOVED*** public void addAlgorithmToSet(String algorithmName, String setName) ***REMOVED***
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***REMOVED*** AlgorithmSet set = this.getAlgorithmSet(setName);
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***REMOVED*** Algorithm algorithm = this.getAlgorithm(algorithmName);
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***REMOVED*** if (set != null && algorithm != null) ***REMOVED***
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***REMOVED*** set.addAlgorithm(algorithm);
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***REMOVED*** this.updateClusters();
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***REMOVED*** ***REMOVED***
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** /**
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***REMOVED*** * Apply the given set of algorithms to the given cluster
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***REMOVED*** *
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***REMOVED*** * @param setId
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***REMOVED*** * @param clusterId
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***REMOVED*** */
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***REMOVED*** public void applyAlgorithmSetToCluster(String setName, String clusterName) ***REMOVED***
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***REMOVED*** AlgorithmSet set = this.getAlgorithmSet(setName);
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***REMOVED*** Cluster cluster = new ISClient().getCluster(clusterName);
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***REMOVED*** if (set != null && cluster != null) ***REMOVED***
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***REMOVED*** cluster.addAlgorithmSet(set);
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***REMOVED*** this.updateClusters();
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***REMOVED*** ***REMOVED***
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** private AlgorithmSet getAlgorithmSet(String name) ***REMOVED***
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***REMOVED*** for (AlgorithmSet set : sets) ***REMOVED***
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***REMOVED*** if (name.equals(set.getName())) ***REMOVED***
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***REMOVED*** return set;
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***REMOVED*** ***REMOVED***
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***REMOVED*** ***REMOVED***
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***REMOVED*** return null;
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** private Algorithm getAlgorithm(String name) ***REMOVED***
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***REMOVED*** for (Algorithm a : algorithms) ***REMOVED***
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***REMOVED*** if (name.equals(a.getName())) ***REMOVED***
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***REMOVED*** return a;
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***REMOVED*** ***REMOVED***
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***REMOVED*** ***REMOVED***
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***REMOVED*** return null;
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***REMOVED*** ***REMOVED***
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***REMOVED*** static Collection<Algorithm> algorithms;
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***REMOVED***
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***REMOVED*** static Collection<AlgorithmSet> sets;
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***REMOVED***
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***REMOVED*** static ***REMOVED***
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***REMOVED*** algorithms = new Vector<>();
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** public DataminerPoolManager() ***REMOVED***
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** /**
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***REMOVED*** * Add a new algorithm to the set of known ones. No further action is
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***REMOVED*** expected
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***REMOVED*** * on the pool.
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***REMOVED*** */
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***REMOVED*** public void publishAlgorithm(Algorithm algorithm) ***REMOVED***
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***REMOVED*** algorithms.add(algorithm);
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** /**
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***REMOVED*** * Re-deploy the given algorithm wherever it's installed
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***REMOVED*** *
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***REMOVED*** * @param algorithm
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***REMOVED*** */
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***REMOVED*** /*
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***REMOVED*** * public void updateAlgorithm(Algorithm algorithm) ***REMOVED*** ***REMOVED*** TODO implement
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***REMOVED*** this ***REMOVED***
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***REMOVED*** */
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***REMOVED***
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***REMOVED*** /**
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***REMOVED*** * Add the give algorithm to the given set
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***REMOVED*** *
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***REMOVED*** * @param algorithmId
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***REMOVED*** * @param setId
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***REMOVED*** */
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***REMOVED*** public void addAlgorithmToSet(String algorithmName, String setName) ***REMOVED***
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***REMOVED*** AlgorithmSet set = this.getAlgorithmSet(setName);
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***REMOVED*** Algorithm algorithm = this.getAlgorithm(algorithmName);
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***REMOVED*** if (set != null && algorithm != null) ***REMOVED***
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***REMOVED*** set.addAlgorithm(algorithm);
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***REMOVED*** this.updateClusters();
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***REMOVED*** ***REMOVED***
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** /**
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***REMOVED*** * Apply the given set of algorithms to the given cluster
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***REMOVED*** *
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***REMOVED*** * @param setId
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***REMOVED*** * @param clusterId
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***REMOVED*** */
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***REMOVED*** public void applyAlgorithmSetToCluster(String setName, String
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***REMOVED*** clusterName) ***REMOVED***
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***REMOVED*** AlgorithmSet set = this.getAlgorithmSet(setName);
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***REMOVED*** Cluster cluster = new ISClient().getCluster(clusterName);
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***REMOVED*** if (set != null && cluster != null) ***REMOVED***
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***REMOVED*** cluster.addAlgorithmSet(set);
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***REMOVED*** this.updateClusters();
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***REMOVED*** ***REMOVED***
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** private AlgorithmSet getAlgorithmSet(String name) ***REMOVED***
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***REMOVED*** for (AlgorithmSet set : sets) ***REMOVED***
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***REMOVED*** if (name.equals(set.getName())) ***REMOVED***
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***REMOVED*** return set;
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***REMOVED*** ***REMOVED***
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***REMOVED*** ***REMOVED***
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***REMOVED*** return null;
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** private Algorithm getAlgorithm(String name) ***REMOVED***
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***REMOVED*** for (Algorithm a : algorithms) ***REMOVED***
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***REMOVED*** if (name.equals(a.getName())) ***REMOVED***
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***REMOVED*** return a;
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***REMOVED*** ***REMOVED***
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***REMOVED*** ***REMOVED***
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***REMOVED*** return null;
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** public void getLogId(final Algorithm algorithm, final String vre) ***REMOVED***
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***REMOVED*** new Thread() ***REMOVED***
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***REMOVED*** public void run() ***REMOVED***
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***REMOVED*** while (true) ***REMOVED***
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***REMOVED*** try ***REMOVED***
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***REMOVED*** addAlgorithmToVRE(algorithm, vre);
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***REMOVED*** ***REMOVED*** catch (Exception e) ***REMOVED***
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***REMOVED*** ***REMOVED***log here
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***REMOVED*** ***REMOVED***
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***REMOVED*** ***REMOVED***
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***REMOVED*** ***REMOVED***
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***REMOVED*** ***REMOVED***.start();
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED***
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***REMOVED*** public String getLogId()***REMOVED***
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***REMOVED*** PrintStream console = System.out;
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***REMOVED*** File path = new File(worker.getWorkdir() + File.separator + "logs");
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***REMOVED*** path.mkdirs();
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***REMOVED*** File n = new File(path + File.separator + worker.getWorkerId());
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***REMOVED*** FileOutputStream fos = new FileOutputStream(n);
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***REMOVED*** PrintStream ps = new PrintStream(fos);
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***REMOVED*** System.setOut(ps);
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***REMOVED*** worker.apply();
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***REMOVED*** System.setOut(console);
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***REMOVED*** worker.apply();
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***REMOVED*** System.out.println("Log stored to to " + n.getAbsolutePath());
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***REMOVED*** ***REMOVED***
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***REMOVED***
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***REMOVED*** public void getLogId(final Algorithm algorithm, final String vre) ***REMOVED***
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***REMOVED*** new Thread() ***REMOVED***
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***REMOVED*** public void run() ***REMOVED***
|
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***REMOVED*** while (true) ***REMOVED***
|
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***REMOVED*** try ***REMOVED***
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***REMOVED*** addAlgorithmToVRE(algorithm, vre);
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***REMOVED*** ***REMOVED*** catch (Exception e) ***REMOVED***
|
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***REMOVED*** ***REMOVED***log here
|
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***REMOVED*** ***REMOVED***
|
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***REMOVED*** ***REMOVED***
|
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***REMOVED*** ***REMOVED***
|
||||
***REMOVED*** ***REMOVED***.start();
|
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***REMOVED******REMOVED***
|
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***REMOVED***
|
||||
***REMOVED***
|
||||
|
||||
***REMOVED*** public String getLogId()***REMOVED***
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***REMOVED*** PrintStream console = System.out;
|
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***REMOVED*** File path = new File(worker.getWorkdir() + File.separator + "logs");
|
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***REMOVED*** path.mkdirs();
|
||||
***REMOVED*** File n = new File(path + File.separator + worker.getWorkerId());
|
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***REMOVED*** FileOutputStream fos = new FileOutputStream(n);
|
||||
***REMOVED*** PrintStream ps = new PrintStream(fos);
|
||||
***REMOVED*** System.setOut(ps);
|
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***REMOVED*** worker.apply();
|
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***REMOVED*** System.setOut(console);
|
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***REMOVED*** worker.apply();
|
||||
***REMOVED*** System.out.println("Log stored to to " + n.getAbsolutePath());
|
||||
***REMOVED******REMOVED***
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||||
|
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|
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|
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|
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***REMOVED*** public String getLogById(String id) throws IOException ***REMOVED***
|
||||
***REMOVED*** String strLine = null;
|
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***REMOVED*** try***REMOVED***
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***REMOVED*** FileInputStream fstream = new FileInputStream("/tmp/dataminer-pool-manager/work/"+id+"/logs/"+id);
|
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***REMOVED*** BufferedReader br = new BufferedReader(new InputStreamReader(fstream));
|
||||
***REMOVED*** /* read log line by line */
|
||||
***REMOVED*** while ((strLine = br.readLine()) != null) ***REMOVED***
|
||||
***REMOVED*** /* parse strLine to obtain what you want */
|
||||
***REMOVED*** System.out.println (strLine);
|
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***REMOVED*** ***REMOVED***
|
||||
***REMOVED*** br.close();
|
||||
***REMOVED*** ***REMOVED*** catch (Exception e) ***REMOVED***
|
||||
***REMOVED*** System.err.println("Error: " + e.getMessage());
|
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***REMOVED*** ***REMOVED***
|
||||
***REMOVED*** return strLine;
|
||||
***REMOVED******REMOVED***
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||||
|
||||
***REMOVED*** public String getLogById(String id) throws IOException ***REMOVED***
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***REMOVED*** String strLine = null;
|
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***REMOVED*** try***REMOVED***
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***REMOVED*** FileInputStream fstream = new
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***REMOVED*** FileInputStream("/tmp/dataminer-pool-manager/work/"+id+"/logs/"+id);
|
||||
***REMOVED*** BufferedReader br = new BufferedReader(new InputStreamReader(fstream));
|
||||
***REMOVED*** /* read log line by line */
|
||||
***REMOVED*** while ((strLine = br.readLine()) != null) ***REMOVED***
|
||||
***REMOVED*** /* parse strLine to obtain what you want */
|
||||
***REMOVED*** System.out.println (strLine);
|
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***REMOVED*** ***REMOVED***
|
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***REMOVED*** br.close();
|
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***REMOVED*** ***REMOVED*** catch (Exception e) ***REMOVED***
|
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***REMOVED*** System.err.println("Error: " + e.getMessage());
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***REMOVED*** ***REMOVED***
|
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***REMOVED*** return strLine;
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***REMOVED*** ***REMOVED***
|
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|
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public String getScriptFromURL(URL url) throws IOException ***REMOVED***
|
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if (url == null) ***REMOVED***
|
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return null;
|
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***REMOVED***
|
||||
URLConnection yc = url.openConnection();
|
||||
BufferedReader input = new BufferedReader(new InputStreamReader(
|
||||
yc.getInputStream()));
|
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String line;
|
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StringBuffer buffer = new StringBuffer();
|
||||
while ((line = input.readLine()) != null) ***REMOVED***
|
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buffer.append(line + "\n");
|
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***REMOVED***
|
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String bufferScript = buffer.substring(0, buffer.length());
|
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input.close();
|
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return bufferScript;
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***REMOVED***
|
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|
||||
|
||||
/**
|
||||
* Publish the given algorithm in the given VRE
|
||||
*
|
||||
* @param algorithmName
|
||||
* @param vre
|
||||
*
|
||||
*/
|
||||
public String addAlgorithmToVRE(Algorithm algorithm, final String vre)
|
||||
throws IOException ***REMOVED***
|
||||
***REMOVED*** create a fake algorithm set
|
||||
final AlgorithmSet algoSet = new AlgorithmSet();
|
||||
algoSet.setName("fake");
|
||||
algoSet.addAlgorithm(algorithm);
|
||||
final String uuid = UUID.randomUUID().toString();
|
||||
public String getScriptFromURL(URL url) throws IOException ***REMOVED***
|
||||
if (url == null) ***REMOVED***
|
||||
***REMOVED***
|
||||
***REMOVED***
|
||||
URLConnection yc = url.openConnection();
|
||||
BufferedReader input = new BufferedReader(new InputStreamReader(yc.getInputStream()));
|
||||
String line;
|
||||
StringBuffer buffer = new StringBuffer();
|
||||
while ((line = input.readLine()) != null) ***REMOVED***
|
||||
buffer.append(line + "\n");
|
||||
***REMOVED***
|
||||
String bufferScript = buffer.substring(0, buffer.length());
|
||||
input.close();
|
||||
return bufferScript;
|
||||
***REMOVED***
|
||||
|
||||
new Thread(new Runnable() ***REMOVED***
|
||||
@Override
|
||||
public void run() ***REMOVED***
|
||||
***REMOVED*** TODO Auto-generated method stub
|
||||
try ***REMOVED***
|
||||
addAlgorithmsToVRE(algoSet, vre, uuid);
|
||||
***REMOVED*** catch (IOException e) ***REMOVED***
|
||||
***REMOVED*** TODO Auto-generated catch block
|
||||
e.printStackTrace();
|
||||
***REMOVED***
|
||||
***REMOVED***
|
||||
***REMOVED***).start();
|
||||
***REMOVED*** this line will execute immediately, not waiting for your task to complete
|
||||
System.out.println(uuid);
|
||||
return uuid;
|
||||
***REMOVED***
|
||||
|
||||
public String addAlgorithmToHost(Algorithm algorithm, final String hostname)
|
||||
throws IOException ***REMOVED***
|
||||
***REMOVED*** create a fake algorithm set
|
||||
final AlgorithmSet algoSet = new AlgorithmSet();
|
||||
algoSet.setName("fake");
|
||||
algoSet.addAlgorithm(algorithm);
|
||||
final String uuid = UUID.randomUUID().toString();
|
||||
***REMOVED****
|
||||
* Publish the given algorithm in the given VRE
|
||||
*
|
||||
* @param algorithmName
|
||||
* @param vre
|
||||
*
|
||||
***REMOVED***
|
||||
public String addAlgorithmToVRE(Algorithm algorithm, final String vre) throws IOException ***REMOVED***
|
||||
***REMOVED*** create a fake algorithm set
|
||||
final AlgorithmSet algoSet = new AlgorithmSet();
|
||||
algoSet.setName("fake");
|
||||
algoSet.addAlgorithm(algorithm);
|
||||
final String uuid = UUID.randomUUID().toString();
|
||||
|
||||
new Thread(new Runnable() ***REMOVED***
|
||||
@Override
|
||||
public void run() ***REMOVED***
|
||||
***REMOVED*** TODO Auto-generated method stub
|
||||
try ***REMOVED***
|
||||
addAlgorithmsToHost(algoSet, hostname, uuid);
|
||||
***REMOVED*** catch (IOException e) ***REMOVED***
|
||||
***REMOVED*** TODO Auto-generated catch block
|
||||
e.printStackTrace();
|
||||
***REMOVED***
|
||||
***REMOVED***
|
||||
***REMOVED***).start();
|
||||
***REMOVED*** this line will execute immediately, not waiting for your task to complete
|
||||
System.out.println(uuid);
|
||||
return uuid;
|
||||
***REMOVED***
|
||||
|
||||
|
||||
public URL getURLfromWorkerLog(String a) throws MalformedURLException, UnknownHostException***REMOVED***
|
||||
|
||||
File path = new File(System.getProperty("user.home")+File.separator+"/gcube/dataminer-pool-manager/work/"+a+File.separator+"logs");
|
||||
new Thread(new Runnable() ***REMOVED***
|
||||
***REMOVED***
|
||||
public void run() ***REMOVED***
|
||||
***REMOVED***
|
||||
try ***REMOVED***
|
||||
addAlgorithmsToVRE(algoSet, vre, uuid);
|
||||
***REMOVED*** catch (IOException e) ***REMOVED***
|
||||
***REMOVED*** TODO Auto-generated catch block
|
||||
e.printStackTrace();
|
||||
***REMOVED***
|
||||
***REMOVED***
|
||||
***REMOVED***).start();
|
||||
***REMOVED*** this line will execute immediately, not waiting for your task to
|
||||
***REMOVED*** complete
|
||||
System.out.println(uuid);
|
||||
return uuid;
|
||||
***REMOVED***
|
||||
|
||||
public String addAlgorithmToHost(Algorithm algorithm, final String hostname) throws IOException ***REMOVED***
|
||||
***REMOVED*** create a fake algorithm set
|
||||
final AlgorithmSet algoSet = new AlgorithmSet();
|
||||
algoSet.setName("fake");
|
||||
algoSet.addAlgorithm(algorithm);
|
||||
final String uuid = UUID.randomUUID().toString();
|
||||
|
||||
new Thread(new Runnable() ***REMOVED***
|
||||
***REMOVED***
|
||||
public void run() ***REMOVED***
|
||||
***REMOVED***
|
||||
try ***REMOVED***
|
||||
addAlgorithmsToHost(algoSet, hostname, uuid);
|
||||
***REMOVED*** catch (IOException e) ***REMOVED***
|
||||
***REMOVED*** TODO Auto-generated catch block
|
||||
e.printStackTrace();
|
||||
***REMOVED***
|
||||
***REMOVED***
|
||||
***REMOVED***).start();
|
||||
***REMOVED*** this line will execute immediately, not waiting for your task to
|
||||
***REMOVED*** complete
|
||||
System.out.println(uuid);
|
||||
return uuid;
|
||||
***REMOVED***
|
||||
|
||||
public URL getURLfromWorkerLog(String a) throws MalformedURLException, UnknownHostException ***REMOVED***
|
||||
|
||||
File path = new File(System.getProperty("user.home") + File.separator + "/gcube/dataminer-pool-manager/work/"
|
||||
+ a + File.separator + "logs");
|
||||
path.mkdirs();
|
||||
File n = new File(path + File.separator +a);
|
||||
***REMOVED***String addr = InetAddress.getLocalHost().getHostAddress();
|
||||
|
||||
File n = new File(path + File.separator + a);
|
||||
***REMOVED*** String addr = InetAddress.getLocalHost().getHostAddress();
|
||||
|
||||
return new File(n.getPath()).toURI().toURL();
|
||||
***REMOVED***
|
||||
|
||||
|
||||
|
||||
public String addAlgorithmsToVRE(AlgorithmSet algorithms, String vre, String uuid) throws IOException ***REMOVED***
|
||||
|
||||
***REMOVED*** create the cluster (dataminers in the vre)
|
||||
Cluster cluster = new Cluster();
|
||||
for(Host h:new ISClient().listDataminersInVRE()) ***REMOVED***
|
||||
cluster.addHost(h);
|
||||
***REMOVED***
|
||||
|
||||
***REMOVED*** apply the changes
|
||||
AnsibleBridge a = new AnsibleBridge();
|
||||
return a.applyAlgorithmSetToCluster(algorithms, cluster,uuid).getWorkerId();
|
||||
|
||||
***REMOVED***
|
||||
|
||||
public String addAlgorithmsToHost(AlgorithmSet algorithms, String hostname, String uuid) throws IOException ***REMOVED***
|
||||
|
||||
***REMOVED*** create the cluster (dataminers in the vre)
|
||||
Cluster cluster = new Cluster();
|
||||
cluster.addHost(new ISClient().getDataminer(hostname));
|
||||
***REMOVED*** for(Host h:new ISClient().listDataminersInVRE()) ***REMOVED***
|
||||
***REMOVED*** cluster.addHost(h);
|
||||
***REMOVED*** ***REMOVED***
|
||||
|
||||
***REMOVED*** apply the changes
|
||||
AnsibleBridge a = new AnsibleBridge();
|
||||
return a.applyAlgorithmSetToCluster(algorithms, cluster,uuid).getWorkerId();
|
||||
|
||||
***REMOVED***
|
||||
|
||||
|
||||
public Algorithm extractAlgorithm(String url) throws IOException ***REMOVED***
|
||||
return new AlgorithmPackageParser().parsePackage(url);
|
||||
***REMOVED***
|
||||
|
||||
|
||||
@Override
|
||||
public void getLogId(Algorithm algo, String vre) ***REMOVED***
|
||||
***REMOVED*** TODO Auto-generated method stub
|
||||
|
||||
***REMOVED***
|
||||
|
||||
public String addAlgorithmsToVRE(AlgorithmSet algorithms, String vre, String uuid) throws IOException ***REMOVED***
|
||||
|
||||
***REMOVED*** create the cluster (dataminers in the vre)
|
||||
Cluster cluster = new Cluster();
|
||||
for (Host h : new ISClient().listDataminersInVRE()) ***REMOVED***
|
||||
cluster.addHost(h);
|
||||
***REMOVED***
|
||||
|
||||
***REMOVED*** apply the changes
|
||||
AnsibleBridge a = new AnsibleBridge();
|
||||
return a.applyAlgorithmSetToCluster(algorithms, cluster, uuid).getWorkerId();
|
||||
|
||||
@Override
|
||||
public String getLogById(String logId) throws IOException ***REMOVED***
|
||||
***REMOVED*** TODO Auto-generated method stub
|
||||
return null;
|
||||
***REMOVED***
|
||||
|
||||
public String addAlgorithmsToHost(AlgorithmSet algorithms, String hostname, String uuid) throws IOException ***REMOVED***
|
||||
|
||||
***REMOVED*** create the cluster (dataminers in the vre)
|
||||
Cluster cluster = new Cluster();
|
||||
cluster.addHost(new ISClient().getDataminer(hostname));
|
||||
***REMOVED*** for(Host h:new ISClient().listDataminersInVRE()) ***REMOVED***
|
||||
***REMOVED*** cluster.addHost(h);
|
||||
***REMOVED*** ***REMOVED***
|
||||
|
||||
***REMOVED*** apply the changes
|
||||
AnsibleBridge a = new AnsibleBridge();
|
||||
return a.applyAlgorithmSetToCluster(algorithms, cluster, uuid).getWorkerId();
|
||||
|
||||
|
||||
***REMOVED***
|
||||
|
||||
public Algorithm extractAlgorithm(String url) throws IOException ***REMOVED***
|
||||
return new AlgorithmPackageParser().parsePackage(url);
|
||||
***REMOVED***
|
||||
|
||||
***REMOVED***
|
||||
public void getLogId(Algorithm algo, String vre) ***REMOVED***
|
||||
***REMOVED***
|
||||
|
||||
***REMOVED***
|
||||
|
||||
***REMOVED***
|
||||
public String getLogById(String logId) throws IOException ***REMOVED***
|
||||
***REMOVED***
|
||||
***REMOVED***
|
||||
***REMOVED***
|
||||
|
||||
***REMOVED*** 2017 March 29
|
||||
|
||||
public void unPublishScopedResource(GenericResource resource) throws RegistryNotFoundException, Exception ***REMOVED***
|
||||
ScopedPublisher scopedPublisher = RegistryPublisherFactory.scopedPublisher();
|
||||
AdvancedScopedPublisher advancedScopedPublisher = new AdvancedScopedPublisher(scopedPublisher);
|
||||
String id = resource.id();
|
||||
LOGGER.debug("Trying to remove ***REMOVED******REMOVED*** with ID ***REMOVED******REMOVED*** from ***REMOVED******REMOVED***", resource.getClass().getSimpleName(), id,
|
||||
ScopeProvider.instance.get());
|
||||
***REMOVED*** scopedPublisher.remove(resource, scopes);
|
||||
advancedScopedPublisher.forceRemove(resource);
|
||||
LOGGER.debug("***REMOVED******REMOVED*** with ID ***REMOVED******REMOVED*** removed successfully", resource.getClass().getSimpleName(), id);
|
||||
***REMOVED***
|
||||
|
||||
public void publishScopedResource(GenericResource a, List<String> scopes)
|
||||
throws RegistryNotFoundException, Exception ***REMOVED***
|
||||
StringWriter stringWriter = new StringWriter();
|
||||
Resources.marshal(a, stringWriter);
|
||||
|
||||
ScopedPublisher scopedPublisher = RegistryPublisherFactory.scopedPublisher();
|
||||
try ***REMOVED***
|
||||
System.out.println(scopes);
|
||||
System.out.println(stringWriter);
|
||||
scopedPublisher.create(a, scopes);
|
||||
***REMOVED*** catch (RegistryNotFoundException e) ***REMOVED***
|
||||
System.out.println(e);
|
||||
throw e;
|
||||
***REMOVED***
|
||||
***REMOVED***
|
||||
|
||||
***REMOVED***
|
||||
public void addAlgToIs(Algorithm algo) ***REMOVED***
|
||||
GenericResource a = new GenericResource();
|
||||
a.newProfile().name(algo.getName()).type("DataMinerAlgorithms").description(algo.getDescription());
|
||||
a.profile().newBody(this.getAlgoBody(algo));
|
||||
try ***REMOVED***
|
||||
publishScopedResource(a, Arrays.asList(new String[] ***REMOVED*** ScopeProvider.instance.get() ***REMOVED***));
|
||||
***REMOVED*** catch (Exception e) ***REMOVED***
|
||||
e.printStackTrace();
|
||||
***REMOVED***
|
||||
***REMOVED***
|
||||
|
||||
private String getAlgoBody(Algorithm algo) ***REMOVED***
|
||||
return "<id>" + algo.getId() + "</id>" + "\n" + "<category>" + algo.getCategory() + "</category>" + "\n"
|
||||
+ "<clazz>" + algo.getClazz() + "</clazz>" + "\n" + "<algorithmType>" + algo.getAlgorithmType()
|
||||
+ "</algorithmType>" + "\n" + "<skipJava>" + algo.getSkipJava() + "</skipJava>" + "\n" + "<packageURL>"
|
||||
+ algo.getPackageURL() + "</packageURL>" + "\n" + "<dependencies>"
|
||||
+ algo.getDependencies().iterator().next().getName() + "</dependencies>";
|
||||
***REMOVED***
|
||||
|
||||
public void updateAlg(Algorithm algo) ***REMOVED***
|
||||
|
||||
ScopedPublisher scopedPublisher = RegistryPublisherFactory.scopedPublisher();
|
||||
|
||||
SimpleQuery query = queryFor(GenericResource.class);
|
||||
query.addCondition("$resource/Profile/Name/text() eq '" + algo.getName() + "'").setResult("$resource");
|
||||
DiscoveryClient<GenericResource> client = clientFor(GenericResource.class);
|
||||
List<GenericResource> ds = client.submit(query);
|
||||
if (ds.isEmpty()) ***REMOVED***
|
||||
return;
|
||||
***REMOVED***
|
||||
GenericResource a = ds.get(0);
|
||||
a.profile().newBody(this.getAlgoBody(algo));
|
||||
try ***REMOVED***
|
||||
scopedPublisher.update(a);
|
||||
***REMOVED*** catch (RegistryNotFoundException e) ***REMOVED***
|
||||
e.printStackTrace();
|
||||
***REMOVED***
|
||||
***REMOVED***
|
||||
|
||||
private Algorithm convertAlgo(GenericResource a) ***REMOVED***
|
||||
Algorithm out = new Algorithm();
|
||||
|
||||
out.setId(a.profile().body().getElementsByTagName("id").item(0).getTextContent());
|
||||
out.setAlgorithmType(a.profile().body().getElementsByTagName("algorithmType").item(0).getTextContent());
|
||||
out.setCategory(a.profile().body().getElementsByTagName("category").item(0).getTextContent());
|
||||
out.setClazz(a.profile().body().getElementsByTagName("clazz").item(0).getTextContent());
|
||||
out.setName(a.profile().name());
|
||||
out.setPackageURL(a.profile().body().getElementsByTagName("packageURL").item(0).getTextContent());
|
||||
out.setSkipJava(a.profile().body().getElementsByTagName("skipJava").item(0).getTextContent());
|
||||
out.setDescription(a.profile().description());
|
||||
|
||||
Set<org.gcube.dataanalysis.dataminer.poolmanager.datamodel.Dependency> deps = new HashSet<org.gcube.dataanalysis.dataminer.poolmanager.datamodel.Dependency>();
|
||||
for (int i = 0; i < a.profile().body().getElementsByTagName("dependencies").getLength(); i++) ***REMOVED***
|
||||
org.gcube.dataanalysis.dataminer.poolmanager.datamodel.Dependency d1 = new org.gcube.dataanalysis.dataminer.poolmanager.datamodel.Dependency();
|
||||
d1.setName(a.profile().body().getElementsByTagName("dependencies").item(i).getTextContent());
|
||||
deps.add(d1);
|
||||
***REMOVED***
|
||||
out.setDependencies(deps);
|
||||
return out;
|
||||
***REMOVED***
|
||||
|
||||
public Algorithm getAlgoById(String id) ***REMOVED***
|
||||
for (Algorithm aa : this.getAlgoFromIs()) ***REMOVED***
|
||||
if (aa.getId().equals(id)) ***REMOVED***
|
||||
return aa;
|
||||
***REMOVED***
|
||||
***REMOVED***
|
||||
***REMOVED***
|
||||
***REMOVED***
|
||||
|
||||
***REMOVED***
|
||||
public Set<Algorithm> getAlgoFromIs() ***REMOVED***
|
||||
***REMOVED***
|
||||
|
||||
Set<Algorithm> out = new HashSet<Algorithm>();
|
||||
SimpleQuery query = queryFor(GenericResource.class);
|
||||
query.addCondition("$resource/Profile/SecondaryType/text() eq 'DataMinerAlgorithms'").setResult("$resource");
|
||||
DiscoveryClient<GenericResource> client = clientFor(GenericResource.class);
|
||||
List<GenericResource> ds = client.submit(query);
|
||||
for (GenericResource a : ds) ***REMOVED***
|
||||
out.add(this.convertAlgo(a));
|
||||
***REMOVED***
|
||||
return out;
|
||||
***REMOVED***
|
||||
|
||||
***REMOVED***
|
||||
|
|
|
|||
Loading…
Reference in New Issue