Package org.apache.airavata.core.gfac.exception

Examples of org.apache.airavata.core.gfac.exception.ProviderException

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            commandString.append(app.getOutputDataDirectory());

            Command cmd = session.exec(commandString.toString());
            cmd.join(COMMAND_EXECUTION_TIMEOUT, TimeUnit.SECONDS);
        } catch (ConnectionException e) {
            throw new ProviderException(e.getMessage(), e, context);
        } catch (TransportException e) {
            throw new ProviderException(e.getMessage(), e, context);
        } catch (IOException e) {
            throw new ProviderException(e.getMessage(), e, context);
        } finally {
            closeSession(session);
        }
    }
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            } else {
                log.debug("Process finished with return value of zero.");
            }

        } catch (ConnectionException e) {
            throw new  ProviderException(e.getMessage(), e, context);
        } catch (TransportException e) {
            throw new ProviderException(e.getMessage(), e, context);
        } catch (IOException e) {
            throw new ProviderException(e.getMessage(), e, context);
        } finally {
            closeSession(session);
        }
    }
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            String stdErrStr = GfacUtils.readFileToString(localStdErrFile.getAbsolutePath());

            return OutputUtils.fillOutputFromStdout(context.<ActualParameter> getOutput(), stdOutStr,stdErrStr);

        } catch (XmlException e) {
            throw new ProviderException("Cannot read output:" + e.getMessage(), e, context);
        } catch (ConnectionException e) {
            throw new ProviderException(e.getMessage(), e, context);
        } catch (TransportException e) {
            throw new ProviderException(e.getMessage(), e, context);
        } catch (IOException e) {
            throw new ProviderException(e.getMessage(), e, context);
        } catch (Exception e){
          throw new ProviderException("Error in retrieving results",e,context);
        }
    }
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    private void makeFileSystemDir(String dir, InvocationContext invocationContext) throws ProviderException {
        File f = new File(dir);
        if (f.isDirectory() && f.exists()) {
            return;
        } else if (!new File(dir).mkdir()) {
            throw new ProviderException("Cannot make directory "+dir, invocationContext);
        }
    }
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                    .append(String.valueOf(returnValue));

            log.info(buf.toString());

        } catch (IOException io) {
            throw new ProviderException(io.getMessage(), io,context);
        } catch (InterruptedException e) {
            throw new ProviderException(e.getMessage(), e, context);
        }
    }
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            String stdErrStr = GfacUtils.readFileToString(app.getStandardError());

            // set to context
            return OutputUtils.fillOutputFromStdout(context.<ActualParameter>getOutput(), stdOutStr, stdErrStr);
        } catch (XmlException e) {
            throw new ProviderException("Cannot read output:" + e.getMessage(), e, context);
        } catch (IOException io) {
            throw new ProviderException(io.getMessage(), io, context);
        } catch (Exception e){
          throw new ProviderException("Error in retrieving results",e,context);
        }
    }
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            if (hostgridFTP == null || hostgridFTP.length == 0) {
                hostgridFTP = new String[] { host.getHostAddress() };
            }

            boolean success = false;
            ProviderException pe = null;// = new ProviderException("");

            for (String endpoint : host.getGridFTPEndPointArray()) {
                try {

                    URI tmpdirURI = GfacUtils.createGsiftpURI(endpoint, app.getScratchWorkingDirectory());
                    URI workingDirURI = GfacUtils.createGsiftpURI(endpoint, app.getStaticWorkingDirectory());
                    URI inputURI = GfacUtils.createGsiftpURI(endpoint, app.getInputDataDirectory());
                    URI outputURI = GfacUtils.createGsiftpURI(endpoint, app.getOutputDataDirectory());

                    log.info("Host FTP = " + hostgridFTP);
                    log.info("temp directory = " + tmpdirURI);
                    log.info("Working directory = " + workingDirURI);
                    log.info("Input directory = " + inputURI);
                    log.info("Output directory = " + outputURI);

                    ftp.makeDir(tmpdirURI, gssCred);
                    ftp.makeDir(workingDirURI, gssCred);
                    ftp.makeDir(inputURI, gssCred);
                    ftp.makeDir(outputURI, gssCred);

                    success = true;
                    break;
                } catch (URISyntaxException e) {
                    pe = new ProviderException("URI is malformatted:" + e.getMessage(), e,invocationContext);

                } catch (ToolsException e) {
                    pe = new ProviderException(e.getMessage(), e,invocationContext);
                }
            }
            if (success == false) {
                throw pe;
            }
        } catch (SecurityException e) {
            throw new ProviderException(e.getMessage(), e,invocationContext);
        }
    }
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            job = new GramJob(rsl);
            listener = new JobSubmissionListener(job, invocationContext);
            job.addListener(listener);

        } catch (ToolsException te) {
            throw new ProviderException(te.getMessage(), te, invocationContext);
        }

    }
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            JobSubmissionFault error = new JobSubmissionFault(this, e, host.getHostAddress(), gateKeeper, job.getRSL(), invocationContext);
            int errCode = listener.getError();
            error.sendFaultNotification(error.getMessage(),invocationContext,error,host.getHostAddress()+ "," + job.getRSL());
        throw errorReason(errCode, error);
        } catch (GSSException e) {
            throw new ProviderException(e.getMessage(), e, invocationContext);
        } catch (InterruptedException e) {
            throw new ProviderException("Thread", e,invocationContext);
        } catch (SecurityException e) {
            throw new ProviderException(e.getMessage(), e,invocationContext);
        } finally {
            if (job != null) {
                try {
                    job.cancel();
                } catch (Exception e) {
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            String[] hostgridFTP = host.getGridFTPEndPointArray();
            if (hostgridFTP == null || hostgridFTP.length == 0) {
                hostgridFTP = new String[] { host.getHostAddress() };
            }
            ProviderException pe = null;
            for (String endpoint : host.getGridFTPEndPointArray()) {
                try {
                    /*
                     *  Read Stdout and Stderror
                     */
                    URI stdoutURI = GfacUtils.createGsiftpURI(endpoint, app.getStandardOutput());
                    URI stderrURI = GfacUtils.createGsiftpURI(endpoint, app.getStandardError());

                    log.info("STDOUT:" + stdoutURI.toString());
                    log.info("STDERR:" + stderrURI.toString());

                    File logDir = new File("./service_logs");
                    if (!logDir.exists()) {
                        logDir.mkdir();
                    }

                    String timeStampedServiceName = GfacUtils.createUniqueNameForService(invocationContext
                            .getServiceName());
                    File localStdOutFile = File.createTempFile(timeStampedServiceName, "stdout");
                    localStdErrFile = File.createTempFile(timeStampedServiceName, "stderr");

                    String stdout = ftp.readRemoteFile(stdoutURI, gssCred, localStdOutFile);
                    String stderr = ftp.readRemoteFile(stderrURI, gssCred, localStdErrFile);
                    Map<String,ActualParameter> stringMap = null;
                    MessageContext<Object> output = invocationContext.getOutput();
                    for (Iterator<String> iterator = output.getNames(); iterator.hasNext(); ) {
                        String paramName = iterator.next();
                        ActualParameter actualParameter = (ActualParameter) output.getValue(paramName);
            if ("URIArray".equals(actualParameter.getType().getType().toString())) {
              URI outputURI = GfacUtils.createGsiftpURI(endpoint,app.getOutputDataDirectory());
              List<String> outputList = ftp.listDir(outputURI,gssCred);
              String[] valueList = outputList.toArray(new String[outputList.size()]);
              ((URIArrayType) actualParameter.getType()).setValueArray(valueList);
              stringMap = new HashMap<String, ActualParameter>();
              stringMap.put(paramName, actualParameter);
              invocationContext.getExecutionContext().getNotifier().output(invocationContext, actualParameter.toString());
            }
                        if ("StringArray".equals(actualParameter.getType().getType().toString())) {
                            String[] valueList = OutputUtils.parseStdoutArray(stdout, paramName);
                            ((StringArrayType) actualParameter.getType()).setValueArray(valueList);
                            stringMap = new HashMap<String, ActualParameter>();
                            stringMap.put(paramName, actualParameter);
                            invocationContext.getExecutionContext().getNotifier().output(invocationContext, actualParameter.toString());
                        }
                      else{
                      // This is to handle exception during the output parsing.
                        stringMap = OutputUtils.fillOutputFromStdout(invocationContext.<ActualParameter>getOutput(), stdout,stderr);
                        String paramValue = output.getStringValue(paramName);
                        if(paramValue == null || paramValue.isEmpty()){
                            int errCode = listener.getError();
                            String errorMsg = "Job " + job.getID() + " on host " + host.getHostAddress();
                            JobSubmissionFault error = new JobSubmissionFault(this, new Exception(errorMsg), "GFAC HOST",
                                    gateKeeper, job.getRSL(), invocationContext);
                            errorReason(errCode, error);
                            invocationContext.getExecutionContext().getNotifier().executionFail(invocationContext,error,
                                    readLastLinesofStdOut(localStdErrFile.getPath(), 20));
                            throw error;
                        }
                        }
                    }
                    if(stringMap == null || stringMap.isEmpty()){
                      ProviderException exception = new ProviderException("Gram provider: Error creating job output", invocationContext);
                       invocationContext.getExecutionContext().getNotifier().executionFail(invocationContext,exception,exception.getLocalizedMessage());
                         throw exception;
                    }
                    // If users has given an output DAta poth we download the output files in to that directory, this will be apath in the machine where GFac is installed
                    if(WorkflowContextHeaderBuilder.getCurrentContextHeader() != null &&
                            WorkflowContextHeaderBuilder.getCurrentContextHeader().getWorkflowOutputDataHandling() != null){
                        WorkflowOutputDataHandlingDocument.WorkflowOutputDataHandling workflowOutputDataHandling =
                                WorkflowContextHeaderBuilder.getCurrentContextHeader().getWorkflowOutputDataHandling();
                        if(workflowOutputDataHandling.getApplicationOutputDataHandlingArray().length != 0){
                            String outputDataDirectory = workflowOutputDataHandling.getApplicationOutputDataHandlingArray()[0].getOutputDataDirectory();
                            if(outputDataDirectory != null && !"".equals(outputDataDirectory)){
                                stageOutputFiles(invocationContext,outputDataDirectory);
                            }
                        }
                    }
                    return stringMap;
                }catch (XmlException e) {
                    throw new ProviderException(e.getMessage(), e,invocationContext,readLastLinesofStdOut(localStdErrFile.getPath(), 20));
                }
                catch (ToolsException e) {
                    throw new ProviderException(e.getMessage(), e,invocationContext,readLastLinesofStdOut(localStdErrFile.getPath(), 20));
                } catch (URISyntaxException e) {
                    throw new ProviderException("URI is malformatted:" + e.getMessage(), e, invocationContext,readLastLinesofStdOut(localStdErrFile.getPath(), 20));
                }catch (NullPointerException e) {
                    throw new ProviderException("Output is not produced in stdout:" + e.getMessage(), e, invocationContext, readLastLinesofStdOut(localStdErrFile.getPath(), 20));
                }
            }

            /*
             * If the execution reach here, all GridFTP Endpoint is failed.
             */
            throw pe;

        } catch (Exception e) {
//            invocationContext.getExecutionContext().getNotifier().executionFail(invocationContext,e,readLastLinesofStdOut(localStdErrFile.getPath(), 20));
            throw new ProviderException(e.getMessage(), e, invocationContext, readLastLinesofStdOut(localStdErrFile.getPath(), 20));
        }

    }
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Related Classes of org.apache.airavata.core.gfac.exception.ProviderException

  • org.apache.airavata.core.gfac.provider.impl.EC2Provider
  • org.apache.airavata.core.gfac.provider.impl.GramProvider
  • org.apache.airavata.core.gfac.provider.impl.LocalProvider
  • org.apache.airavata.core.gfac.provider.impl.SSHProvider
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