Package org.apache.airavata.gsi.ssh.api

Examples of org.apache.airavata.gsi.ssh.api.Cluster

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    private SecurityContext getSecurityContext(HpcApplicationDeploymentType app) {
        AuthenticationInfo authenticationInfo = new DefaultPasswordAuthenticationInfo(this.password);
        // Server info
        ServerInfo serverInfo = new ServerInfo(this.userName, this.hostName);

        Cluster pbsCluster = null;
        try {
             pbsCluster = new PBSCluster(serverInfo, authenticationInfo,
                     (app.getInstalledParentPath()));
        } catch (SSHApiException e) {
            e.printStackTrace();  //To change body of catch statement use File | Settings | File Templates.
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    log.info("Setup SSH job directorties");
    makeDirectory(jobExecutionContext);

  }
  private void makeDirectory(JobExecutionContext jobExecutionContext) throws GFacException {
    Cluster cluster = null;
            if (jobExecutionContext.getSecurityContext(GSISecurityContext.GSI_SECURITY_CONTEXT) != null) {
                cluster = ((GSISecurityContext) jobExecutionContext.getSecurityContext(GSISecurityContext.GSI_SECURITY_CONTEXT)).getPbsCluster();
            } else {
                cluster = ((SSHSecurityContext) jobExecutionContext.getSecurityContext(SSHSecurityContext.SSH_SECURITY_CONTEXT)).getPbsCluster();
            }
            if (cluster == null) {
                throw new GFacHandlerException("Security context is not set properly");
            } else {
                log.info("Successfully retrieved the Security Context");
            }
    ApplicationDeploymentDescriptionType app = jobExecutionContext.getApplicationContext().getApplicationDeploymentDescription().getType();
    try {
            cluster.makeDirectory(app.getScratchWorkingDirectory());
            cluster.makeDirectory(app.getInputDataDirectory());
            cluster.makeDirectory(app.getOutputDataDirectory());
    } catch (SSHApiException e) {
            throw new GFacHandlerException("Error executing the Handler: " + SCPDirectorySetupHandler.class,e);  //To change body of catch statement use File | Settings | File Templates.
        }
  }
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        }
        jobExecutionContext.setInMessageContext(inputNew);
    }

    private static String stageInputFiles(JobExecutionContext jobExecutionContext, String paramValue) throws IOException, GFacException {
        Cluster cluster = null;
        if (jobExecutionContext.getSecurityContext(GSISecurityContext.GSI_SECURITY_CONTEXT) != null) {
            cluster = ((GSISecurityContext) jobExecutionContext.getSecurityContext(GSISecurityContext.GSI_SECURITY_CONTEXT)).getPbsCluster();
        } else {
            cluster = ((SSHSecurityContext) jobExecutionContext.getSecurityContext(SSHSecurityContext.SSH_SECURITY_CONTEXT)).getPbsCluster();
        }
        if (cluster == null) {
            throw new GFacException("Security context is not set properly");
        } else {
            log.info("Successfully retrieved the Security Context");
        }
        ApplicationDeploymentDescriptionType app = jobExecutionContext.getApplicationContext().getApplicationDeploymentDescription().getType();
        int i = paramValue.lastIndexOf(File.separator);
        String substring = paramValue.substring(i + 1);
        try {
            String targetFile = app.getInputDataDirectory() + File.separator + substring;
            if(paramValue.startsWith("file")){
                paramValue = paramValue.substring(paramValue.indexOf(":") + 1, paramValue.length());
            }
            cluster.scpTo(targetFile, paramValue);
            return targetFile;
        } catch (SSHApiException e) {
            throw new GFacHandlerException("Error while input File Staging", e, e.getLocalizedMessage());
        }
    }
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                GSIAuthenticationInfo authenticationInfo
                        = new MyProxyAuthenticationInfo(requestData.getMyProxyUserName(), requestData.getMyProxyPassword(), requestData.getMyProxyServerUrl(),
                        requestData.getMyProxyPort(), requestData.getMyProxyLifeTime(), System.getProperty(Constants.TRUSTED_CERTIFICATE_SYSTEM_PROPERTY));
                ServerInfo serverInfo = new ServerInfo(requestData.getMyProxyUserName(), registeredHost.getType().getHostAddress());

                Cluster pbsCluster = null;
                try {
                    pbsCluster = new PBSCluster(serverInfo, authenticationInfo,
                            (((HpcApplicationDeploymentType) jobExecutionContext.getApplicationContext().getApplicationDeploymentDescription().getType()).getInstalledParentPath()));
                } catch (SSHApiException e) {
                    e.printStackTrace();  //To change body of catch statement use File | Settings | File Templates.
                }

                context.setPbsCluster(pbsCluster);
            }
           
            jobExecutionContext.addSecurityContext(GSISecurityContext.GSI_SECURITY_CONTEXT, context);
        } else if (registeredHost.getType() instanceof Ec2HostType) {
            if (this.configuration.getAmazonSecurityContext() != null) {
                jobExecutionContext.addSecurityContext(AmazonSecurityContext.AMAZON_SECURITY_CONTEXT,
                        this.configuration.getAmazonSecurityContext());
            }
        } else if (registeredHost.getType() instanceof SSHHostType) {
            String sshUserName = configurationProperties.getProperty(Constants.SSH_USER_NAME);
            String sshPrivateKey = configurationProperties.getProperty(Constants.SSH_PRIVATE_KEY);
            String sshPrivateKeyPass = configurationProperties.getProperty(Constants.SSH_PRIVATE_KEY_PASS);
            String sshPassword = configurationProperties.getProperty(Constants.SSH_PASSWORD);
            String sshPublicKey = configurationProperties.getProperty(Constants.SSH_PUBLIC_KEY);
            SSHSecurityContext sshSecurityContext = new SSHSecurityContext();
            if (((SSHHostType) registeredHost.getType()).getHpcResource()) {
                AuthenticationInfo authenticationInfo = null;
                // we give higher preference to the password over keypair ssh authentication
                if (sshPassword != null) {
                    authenticationInfo = new DefaultPasswordAuthenticationInfo(sshPassword);
                } else {
                    authenticationInfo = new DefaultPublicKeyFileAuthentication(sshPublicKey, sshPrivateKey, sshPrivateKeyPass);
                }
                ServerInfo serverInfo = new ServerInfo(sshUserName, registeredHost.getType().getHostAddress());

                Cluster pbsCluster = null;
                try {
                    pbsCluster = new PBSCluster(serverInfo, authenticationInfo,
                            (((HpcApplicationDeploymentType) jobExecutionContext.getApplicationContext().getApplicationDeploymentDescription().getType()).getInstalledParentPath()));
                } catch (SSHApiException e) {
                    e.printStackTrace();  //To change body of catch statement use File | Settings | File Templates.
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    public void invoke(JobExecutionContext jobExecutionContext) throws GFacHandlerException {

        ApplicationDeploymentDescriptionType app = jobExecutionContext.getApplicationContext()
                .getApplicationDeploymentDescription().getType();
        try {
            Cluster cluster = null;
            if (jobExecutionContext.getSecurityContext(GSISecurityContext.GSI_SECURITY_CONTEXT) != null) {
                cluster = ((GSISecurityContext) jobExecutionContext.getSecurityContext(GSISecurityContext.GSI_SECURITY_CONTEXT)).getPbsCluster();
            } else {
                cluster = ((SSHSecurityContext) jobExecutionContext.getSecurityContext(SSHSecurityContext.SSH_SECURITY_CONTEXT)).getPbsCluster();
            }
            if (cluster == null) {
                throw new GFacProviderException("Security context is not set properly");
            } else {
                log.info("Successfully retrieved the Security Context");
            }

            // Get the Stdouts and StdErrs
            String timeStampedServiceName = GFacUtils.createUniqueNameForService(jobExecutionContext.getServiceName());
            File localStdOutFile = File.createTempFile(timeStampedServiceName, "stdout");
            File localStdErrFile = File.createTempFile(timeStampedServiceName, "stderr");

            log.info("Downloading file : " + app.getStandardError() + " to : " + localStdErrFile.getAbsolutePath());
            cluster.scpFrom(app.getStandardOutput(), localStdOutFile.getAbsolutePath());
            log.info("Downloading file : " + app.getStandardOutput() + " to : " + localStdOutFile.getAbsolutePath());
            cluster.scpFrom(app.getStandardError(), localStdErrFile.getAbsolutePath());

            String stdOutStr = GFacUtils.readFileToString(localStdOutFile.getAbsolutePath());
            String stdErrStr = GFacUtils.readFileToString(localStdErrFile.getAbsolutePath());

            Map<String, ActualParameter> stringMap = new HashMap<String, ActualParameter>();
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Related Classes of org.apache.airavata.gsi.ssh.api.Cluster

  • org.apache.airavata.core.gfac.services.impl.BigRed2Test
  • org.apache.airavata.core.gfac.services.impl.BigRed2TestWithSSHAuth
  • org.apache.airavata.core.gfac.services.impl.GSISSHProviderTest
  • org.apache.airavata.core.gfac.services.impl.GSISSHProviderTestWithMyProxyAuth
  • org.apache.airavata.gfac.gsissh.handler.GSISSHDirectorySetupHandler
  • org.apache.airavata.gfac.gsissh.handler.GSISSHInputHandler
  • org.apache.airavata.gfac.gsissh.handler.GSISSHOutputHandler
  • org.apache.airavata.gfac.gsissh.provider.impl.GSISSHProvider
  • org.apache.airavata.gfac.gsissh.util.GFACGSISSHUtils
  • org.apache.airavata.gfac.handler.SCPDirectorySetupHandler
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