Package org.apache.airavata.gfac.core.provider

Examples of org.apache.airavata.gfac.core.provider.GFacProviderException

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            Cluster cluster = null;
            if (jobExecutionContext.getSecurityContext(GSISecurityContext.GSI_SECURITY_CONTEXT) != null) {
                cluster = ((GSISecurityContext) jobExecutionContext.getSecurityContext(GSISecurityContext.GSI_SECURITY_CONTEXT)).getPbsCluster();
            }
            if (cluster == null) {
                throw new GFacProviderException("Security context is not set properly");
            } else {
                log.info("Successfully retrieved the Security Context");
            }
            // This installed path is a mandetory field, because this could change based on the computing resource
            JobDescriptor jobDescriptor = GFACGSISSHUtils.createJobDescriptor(jobExecutionContext, app, cluster);

            log.info(jobDescriptor.toXML());
            data.append("jobDesc=").append(jobDescriptor.toXML());
            jobDetails.setJobDescription(jobDescriptor.toXML());

            String jobID = cluster.submitBatchJob(jobDescriptor);
            jobExecutionContext.setJobDetails(jobDetails);
            if (jobID == null) {
                jobDetails.setJobID("none");
                GFacUtils.saveJobStatus(jobExecutionContext, jobDetails, JobState.FAILED);
            } else {
                jobDetails.setJobID(jobID);
                GFacUtils.saveJobStatus(jobExecutionContext, jobDetails, JobState.SUBMITTED);
            }
            data.append(",jobId=").append(jobDetails.getJobID());

            // Now job has submitted to the resource, its up to the Provider to parse the information to daemon handler
            // to perform monitoring, daemon handlers can be accessed from anywhere
            delegateToMonitorHandlers(jobExecutionContext, (GsisshHostType) host, jobID);
            // we know this host is type GsiSSHHostType
        } catch (SSHApiException e) {
            String error = "Error submitting the job to host " + host.getHostAddress() + " message: " + e.getMessage();
            log.error(error);
            jobDetails.setJobID("none");
            GFacUtils.saveJobStatus(jobExecutionContext, jobDetails, JobState.FAILED);
            GFacUtils.saveErrorDetails(jobExecutionContext, error, CorrectiveAction.CONTACT_SUPPORT, ErrorCategory.AIRAVATA_INTERNAL_ERROR);
            throw new GFacProviderException(error, e);
        } catch (Exception e) {
            String error = "Error submitting the job to host " + host.getHostAddress() + " message: " + e.getMessage();
            log.error(error);
            jobDetails.setJobID("none");
            GFacUtils.saveJobStatus(jobExecutionContext, jobDetails, JobState.FAILED);
            GFacUtils.saveErrorDetails(jobExecutionContext, error, CorrectiveAction.CONTACT_SUPPORT, ErrorCategory.AIRAVATA_INTERNAL_ERROR);
            throw new GFacProviderException(error, e);
        } finally {
            log.info("Saving data for future recovery: ");
            log.info(data.toString());
            GFacUtils.savePluginData(jobExecutionContext, data, this.getClass().getName());
        }
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            String[] split = pluginData.split(",");
            if (split.length < 2) {
                try {
                    this.execute(jobExecutionContext);
                } catch (GFacException e) {
                    throw new GFacProviderException("Error recovering provider", e);
                }
                return;
            }
            jobDesc = split[0].substring(7);
            jobId = split[1].substring(6);

            log.info("Following data have recovered: ");
            log.info("Job Description: " + jobDesc);
            log.info("Job Id: " + jobId);
            if (jobId == null || "none".equals(jobId) ||
                    "".equals(jobId)) {
                try {
                    this.execute(jobExecutionContext);
                } catch (GFacException e) {
                    throw new GFacProviderException("Error recovering provider", e);
                }
                return;
            }
        } catch (ApplicationSettingsException e) {
            e.printStackTrace();
        } catch (KeeperException e) {
            e.printStackTrace();
        } catch (InterruptedException e) {
            e.printStackTrace();
        }
        try {
            // Now we are we have enough data to recover
            JobDetails jobDetails = new JobDetails();
            jobDetails.setJobDescription(jobDesc);
            jobDetails.setJobID(jobId);
            jobExecutionContext.setJobDetails(jobDetails);
            if (jobExecutionContext.getSecurityContext(GSISecurityContext.GSI_SECURITY_CONTEXT) == null) {
                try {
                    GFACGSISSHUtils.addSecurityContext(jobExecutionContext);
                } catch (ApplicationSettingsException e) {
                    log.error(e.getMessage());
                    throw new GFacHandlerException("Error while creating SSHSecurityContext", e, e.getLocalizedMessage());
                }
            }
            delegateToMonitorHandlers(jobExecutionContext, (GsisshHostType) host, jobId);
        } catch (GFacHandlerException e) {
            throw new GFacProviderException("Error delegating already ran job to Monitoring", e);
        }
    }
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                cluster = ((GSISecurityContext) jobExecutionContext.getSecurityContext(GSISecurityContext.GSI_SECURITY_CONTEXT)).getPbsCluster();
            } else {
                cluster = ((GSISecurityContext) jobExecutionContext.getSecurityContext(GSISecurityContext.GSI_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
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        ApplicationDeploymentDescriptionType app = jobExecutionContext.getApplicationContext()
                .getApplicationDeploymentDescription().getType();
        try {
            Cluster 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
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            log.info(remoteFile);
            try {
                File runscript = createShellScript(jobExecutionContext);
                cluster.scpTo(remoteFile, runscript.getAbsolutePath());
            } catch (Exception e) {
                throw new GFacProviderException(e.getLocalizedMessage(), e);
            }
        } else {
            hpcType = true;
        }
    }
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                log.info("stdout=" + stdOutputString);

//                GFacUtils.updateJobStatus(details, JobState.COMPLETE);
            } catch (Exception e) {
                throw new GFacProviderException(e.getMessage(), e);
            } finally {
                if (cluster != null) {
                    try {
                        cluster.disconnect();
                    } catch (SSHApiException e) {
                        throw new GFacProviderException(e.getMessage(), e);
                    }
                }
            }
        } else {
            try {
                jobExecutionContext.getNotifier().publish(new StartExecutionEvent());
                HostDescriptionType host = jobExecutionContext.getApplicationContext().
                        getHostDescription().getType();
                HpcApplicationDeploymentType app = (HpcApplicationDeploymentType) jobExecutionContext.getApplicationContext().
                        getApplicationDeploymentDescription().getType();
                JobDetails jobDetails = new JobDetails();
                String taskID = jobExecutionContext.getTaskData().getTaskID();
                try {
                    Cluster cluster = null;
                    if (jobExecutionContext.getSecurityContext(SSHSecurityContext.SSH_SECURITY_CONTEXT) != null) {
                        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");
                    }
                    // This installed path is a mandetory field, because this could change based on the computing resource
                    JobDescriptor jobDescriptor = GFACSSHUtils.createJobDescriptor(jobExecutionContext, app, cluster);

                    log.info(jobDescriptor.toXML());

                    jobDetails.setJobDescription(jobDescriptor.toXML());

                    String jobID = cluster.submitBatchJob(jobDescriptor);
                    jobExecutionContext.setJobDetails(jobDetails);
                    if (jobID == null) {
                        jobDetails.setJobID("none");
                        GFacUtils.saveJobStatus(jobExecutionContext, jobDetails, JobState.FAILED);
                    } else {
                        jobDetails.setJobID(jobID);
                        GFacUtils.saveJobStatus(jobExecutionContext, jobDetails, JobState.SUBMITTED);
                    }
                    delegateToMonitorHandlers(jobExecutionContext);
                } catch (SSHApiException e) {
                    String error = "Error submitting the job to host " + host.getHostAddress() + " message: " + e.getMessage();
                    log.error(error);
                    jobDetails.setJobID("none");
                    GFacUtils.saveJobStatus(jobExecutionContext, jobDetails, JobState.FAILED);
                    GFacUtils.saveErrorDetails(jobExecutionContext, error, CorrectiveAction.CONTACT_SUPPORT, ErrorCategory.AIRAVATA_INTERNAL_ERROR);
                    throw new GFacProviderException(error, e);
                } catch (Exception e) {
                    String error = "Error submitting the job to host " + host.getHostAddress() + " message: " + e.getMessage();
                    log.error(error);
                    jobDetails.setJobID("none");
                    GFacUtils.saveJobStatus(jobExecutionContext, jobDetails, JobState.FAILED);
                    GFacUtils.saveErrorDetails(jobExecutionContext, error, CorrectiveAction.CONTACT_SUPPORT, ErrorCategory.AIRAVATA_INTERNAL_ERROR);
                    throw new GFacProviderException(error, e);
                }
            } catch (GFacException e) {
                throw new GFacProviderException(e.getMessage(), e);
            }
        }
    }
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                    jobExecutionContext.getExperiment().getUserName());
            JobStatusChangeRequest jobStatusChangeRequest = new JobStatusChangeRequest(monitorID);
            jobStatusChangeRequest.setState(JobState.COMPLETE);
            this.getMonitorPublisher().publish(jobStatusChangeRequest);
        } catch (IOException io) {
            throw new GFacProviderException(io.getMessage(), io);
        } catch (InterruptedException e) {
            throw new GFacProviderException(e.getMessage(), e);
        }catch (GFacException e) {
            throw new GFacProviderException(e.getMessage(), e);
        }
    }
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            String stdErrStr = GFacUtils.readFileToString(app.getStandardError());
      Map<String, Object> output = jobExecutionContext.getOutMessageContext().getParameters();
            OutputUtils.fillOutputFromStdout(output, stdOutStr, stdErrStr, outputArray);
            registry.add(ChildDataType.EXPERIMENT_OUTPUT, outputArray, jobExecutionContext.getExperimentID());
        } catch (XmlException e) {
            throw new GFacProviderException("Cannot read output:" + e.getMessage(), e);
        } catch (IOException io) {
            throw new GFacProviderException(io.getMessage(), io);
        } catch (Exception e){
          throw new GFacProviderException("Error in retrieving results",e);
        }
    }
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    private void makeFileSystemDir(String dir) throws GFacProviderException {
        File f = new File(dir);
        if (f.isDirectory() && f.exists()) {
            return;
        } else if (!new File(dir).mkdir()) {
            throw new GFacProviderException("Cannot make directory " + dir);
        }
    }
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            if (jobExecutionContext.getSecurityContext(AmazonSecurityContext.AMAZON_SECURITY_CONTEXT)
                    instanceof AmazonSecurityContext) {
                this.amazonSecurityContext = (AmazonSecurityContext) jobExecutionContext.
                        getSecurityContext(AmazonSecurityContext.AMAZON_SECURITY_CONTEXT);
            } else {
                throw new GFacProviderException("Amazon Security Context is not set" + jobExecutionContext);
            }
        } else {
            throw new GFacProviderException("Job Execution Context is null" + jobExecutionContext);
        }

        if (log.isDebugEnabled()) {
            log.debug("ACCESS_KEY:" + amazonSecurityContext.getAccessKey());
            log.debug("SECRET_KEY:" + amazonSecurityContext.getSecretKey());
            log.debug("AMI_ID:" + amazonSecurityContext.getAmiId());
            log.debug("INS_ID:" + amazonSecurityContext.getInstanceId());
            log.debug("INS_TYPE:" + amazonSecurityContext.getInstanceType());
            log.debug("USERNAME:" + amazonSecurityContext.getUserName());
        }
//        job
        details.setJobID(jobId);
        /* Validation */
        if (amazonSecurityContext.getAccessKey() == null || amazonSecurityContext.getAccessKey().isEmpty())
            throw new GFacProviderException("EC2 Access Key is empty");
        if (amazonSecurityContext.getSecretKey() == null || amazonSecurityContext.getSecretKey().isEmpty())
            throw new GFacProviderException("EC2 Secret Key is empty");
        if ((amazonSecurityContext.getAmiId() == null && amazonSecurityContext.getInstanceId() == null) ||
                (amazonSecurityContext.getAmiId() != null && amazonSecurityContext.getAmiId().isEmpty()) ||
                (amazonSecurityContext.getInstanceId() != null && amazonSecurityContext.getInstanceId().isEmpty()))
            throw new GFacProviderException("EC2 AMI or Instance ID is empty");
        if (amazonSecurityContext.getUserName() == null || amazonSecurityContext.getUserName().isEmpty())
            throw new GFacProviderException("EC2 Username is empty");

        /* Need to start EC2 instance before running it */
        AWSCredentials credential =
                new BasicAWSCredentials(amazonSecurityContext.getAccessKey(), amazonSecurityContext.getSecretKey());
        AmazonEC2Client ec2client = new AmazonEC2Client(credential);
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