Created a generic Argument parser to be used in all modules
This commit is contained in:
parent
b259cd0bd8
commit
a423a6ebfd
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@ -4,6 +4,7 @@ import com.fasterxml.jackson.databind.ObjectMapper;
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import eu.dnetlib.collector.worker.model.ApiDescriptor;
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import eu.dnetlib.collector.worker.plugins.CollectorPlugin;
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import eu.dnetlib.collector.worker.utils.CollectorPluginFactory;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import eu.dnetlib.message.Message;
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import eu.dnetlib.message.MessageManager;
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import eu.dnetlib.message.MessageType;
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@ -29,12 +30,12 @@ public class DnetCollectorWorker {
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private final CollectorPluginFactory collectorPluginFactory;
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private final DnetCollectorWorkerArgumentParser argumentParser;
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private final ArgumentApplicationParser argumentParser;
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private final MessageManager manager;
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public DnetCollectorWorker(final CollectorPluginFactory collectorPluginFactory, final DnetCollectorWorkerArgumentParser argumentParser, final MessageManager manager) throws DnetCollectorException {
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public DnetCollectorWorker(final CollectorPluginFactory collectorPluginFactory, final ArgumentApplicationParser argumentParser, final MessageManager manager) throws DnetCollectorException {
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this.collectorPluginFactory = collectorPluginFactory;
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this.argumentParser = argumentParser;
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this.manager = manager;
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@ -44,11 +45,11 @@ public class DnetCollectorWorker {
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public void collect() throws DnetCollectorException {
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try {
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final ObjectMapper jsonMapper = new ObjectMapper();
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final ApiDescriptor api = jsonMapper.readValue(argumentParser.getJson(), ApiDescriptor.class);
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final ApiDescriptor api = jsonMapper.readValue(argumentParser.get("apidescriptor"), ApiDescriptor.class);
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final CollectorPlugin plugin = collectorPluginFactory.getPluginByProtocol(api.getProtocol());
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final String hdfsuri = argumentParser.getNameNode();
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final String hdfsuri = argumentParser.get("namenode");
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// ====== Init HDFS File System Object
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Configuration conf = new Configuration();
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@ -58,11 +59,11 @@ public class DnetCollectorWorker {
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conf.set("fs.hdfs.impl", org.apache.hadoop.hdfs.DistributedFileSystem.class.getName());
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conf.set("fs.file.impl", org.apache.hadoop.fs.LocalFileSystem.class.getName());
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System.setProperty("HADOOP_USER_NAME", argumentParser.getUser());
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System.setProperty("HADOOP_USER_NAME", argumentParser.get("userHDFS"));
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System.setProperty("hadoop.home.dir", "/");
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//Get the filesystem - HDFS
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FileSystem fs = FileSystem.get(URI.create(hdfsuri), conf);
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Path hdfswritepath = new Path(argumentParser.getHdfsPath());
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Path hdfswritepath = new Path(argumentParser.get("hdfsPath"));
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log.info("Created path " + hdfswritepath.toString());
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@ -81,7 +82,7 @@ public class DnetCollectorWorker {
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if (counter.get() % 10 == 0) {
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try {
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ongoingMap.put("ongoing", "" + counter.get());
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log.debug("Sending message: "+ manager.sendMessage(new Message(argumentParser.getWorkflowId(), "Collection", MessageType.ONGOING, ongoingMap), argumentParser.getRabbitOngoingQueue(), true, false));
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log.debug("Sending message: "+ manager.sendMessage(new Message(argumentParser.get("workflowId"), "Collection", MessageType.ONGOING, ongoingMap), argumentParser.get("rabbitOngoingQueue"), true, false));
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} catch (Exception e) {
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log.error("Error on sending message ", e);
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}
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@ -95,9 +96,9 @@ public class DnetCollectorWorker {
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});
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}
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ongoingMap.put("ongoing", "" + counter.get());
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manager.sendMessage(new Message(argumentParser.getWorkflowId(), "Collection", MessageType.ONGOING, ongoingMap), argumentParser.getRabbitOngoingQueue(), true, false);
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manager.sendMessage(new Message(argumentParser.get("workflowId"), "Collection", MessageType.ONGOING, ongoingMap), argumentParser.get("rabbitOngoingQueue"), true, false);
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reportMap.put("collected", "" + counter.get());
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manager.sendMessage(new Message(argumentParser.getWorkflowId(), "Collection", MessageType.REPORT, reportMap), argumentParser.getRabbitOngoingQueue(), true, false);
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manager.sendMessage(new Message(argumentParser.get("workflowId"), "Collection", MessageType.REPORT, reportMap), argumentParser.get("rabbitOngoingQueue"), true, false);
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manager.close();
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} catch (Throwable e) {
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throw new DnetCollectorException("Error on collecting ",e);
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@ -1,7 +1,9 @@
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package eu.dnetlib.collector.worker;
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import eu.dnetlib.collector.worker.utils.CollectorPluginFactory;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import eu.dnetlib.message.MessageManager;
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import org.apache.commons.io.IOUtils;
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import org.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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@ -21,7 +23,7 @@ public class DnetCollectorWorkerApplication {
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private static CollectorPluginFactory collectorPluginFactory = new CollectorPluginFactory();
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private static DnetCollectorWorkerArgumentParser argumentParser = new DnetCollectorWorkerArgumentParser();
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private static ArgumentApplicationParser argumentParser;
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/**
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@ -29,10 +31,11 @@ public class DnetCollectorWorkerApplication {
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*/
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public static void main(final String[] args) throws Exception {
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argumentParser= new ArgumentApplicationParser(IOUtils.toString(DnetCollectorWorker.class.getResourceAsStream("/eu/dnetlib/collector/worker/collector_parameter.json")));
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argumentParser.parseArgument(args);
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log.info("hdfsPath =" + argumentParser.getHdfsPath());
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log.info("json = " + argumentParser.getJson());
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final MessageManager manager = new MessageManager(argumentParser.getRabbitHost(), argumentParser.getRabbitUser(), argumentParser.getRabbitPassword(), false, false, null);
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log.info("hdfsPath =" + argumentParser.get("hdfsPath"));
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log.info("json = " + argumentParser.get("apidescriptor"));
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final MessageManager manager = new MessageManager(argumentParser.get("rabbitHost"), argumentParser.get("rabbitUser"), argumentParser.get("rabbitPassword"), false, false, null);
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final DnetCollectorWorker worker = new DnetCollectorWorker(collectorPluginFactory, argumentParser, manager);
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worker.collect();
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@ -1,193 +0,0 @@
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package eu.dnetlib.collector.worker;
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import org.apache.commons.cli.*;
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public class DnetCollectorWorkerArgumentParser {
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private final Options options;
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private String hdfsPath ;
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private String json;
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private String nameNode;
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private String user;
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private String rabbitUser;
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private String rabbitPassword;
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private String rabbitHost;
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private String rabbitOngoingQueue;
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private String rabbitReportQueue;
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private String workflowId;
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public DnetCollectorWorkerArgumentParser(){
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options = new Options();
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options.addOption(Option.builder("p")
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.longOpt("hdfsPath")
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.required(true)
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.desc("the path where storing the sequential file")
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.hasArg() // This option has an argument.
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.build());
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options.addOption(Option.builder("a")
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.longOpt("apidescriptor")
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.required(true)
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.desc("the Json enconding of the API Descriptor")
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.hasArg() // This option has an argument.
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.build());
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options.addOption(Option.builder("n")
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.longOpt("namenode")
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.required(true)
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.desc("the Name Node URI")
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.hasArg() // This option has an argument.
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.build());
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options.addOption(Option.builder("u")
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.longOpt("userHDFS")
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.required(true)
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.desc("the user wich create the hdfs seq file")
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.hasArg() // This option has an argument.
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.build());
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options.addOption(Option.builder("ru")
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.longOpt("rabbitUser")
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.required(true)
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.desc("the user to connect with RabbitMq for messaging")
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.hasArg() // This option has an argument.
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.build());
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options.addOption(Option.builder("rp")
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.longOpt("rabbitPassWord")
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.required(true)
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.desc("the password to connect with RabbitMq for messaging")
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.hasArg() // This option has an argument.
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.build());
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options.addOption(Option.builder("rh")
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.longOpt("rabbitHost")
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.required(true)
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.desc("the host of the RabbitMq server")
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.hasArg() // This option has an argument.
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.build());
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options.addOption(Option.builder("ro")
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.longOpt("rabbitOngoingQueue")
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.required(true)
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.desc("the name of the ongoing queue")
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.hasArg() // This option has an argument.
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.build());
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options.addOption(Option.builder("rr")
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.longOpt("rabbitReportQueue")
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.required(true)
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.desc("the name of the report queue")
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.hasArg() // This option has an argument.
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.build());
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options.addOption(Option.builder("w")
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.longOpt("workflowId")
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.required(true)
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.desc("the identifier of the dnet Workflow")
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.hasArg() // This option has an argument.
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.build());
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}
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public void parseArgument(final String[] args) throws DnetCollectorException {
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try {
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CommandLineParser parser = new DefaultParser();
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CommandLine cmd = parser.parse(options, args);
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hdfsPath = cmd.getOptionValue("p");
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json = cmd.getOptionValue("a");
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nameNode = cmd.getOptionValue("n");
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user = cmd.getOptionValue("u");
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rabbitUser = cmd.getOptionValue("ru");
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rabbitPassword = cmd.getOptionValue("rp");
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rabbitHost = cmd.getOptionValue("rh");
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rabbitOngoingQueue = cmd.getOptionValue("ro");
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rabbitReportQueue = cmd.getOptionValue("rr");
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workflowId = cmd.getOptionValue("w");
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} catch (Throwable e){
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throw new DnetCollectorException("Error during parsing arguments ",e);
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}
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}
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public Options getOptions() {
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return options;
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}
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public String getHdfsPath() {
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return hdfsPath;
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}
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public void setHdfsPath(String hdfsPath) {
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this.hdfsPath = hdfsPath;
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}
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public String getJson() {
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return json;
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}
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public void setJson(String json) {
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this.json = json;
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}
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public String getNameNode() {
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return nameNode;
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}
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public void setNameNode(String nameNode) {
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this.nameNode = nameNode;
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}
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public String getUser() {
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return user;
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}
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public void setUser(String user) {
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this.user = user;
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}
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public String getRabbitUser() {
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return rabbitUser;
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}
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public void setRabbitUser(String rabbitUser) {
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this.rabbitUser = rabbitUser;
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}
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public String getRabbitPassword() {
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return rabbitPassword;
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}
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public void setRabbitPassword(String rabbitPassword) {
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this.rabbitPassword = rabbitPassword;
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}
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public String getRabbitHost() {
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return rabbitHost;
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}
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public void setRabbitHost(String rabbitHost) {
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this.rabbitHost = rabbitHost;
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}
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public String getRabbitOngoingQueue() {
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return rabbitOngoingQueue;
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}
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public void setRabbitOngoingQueue(String rabbitOngoingQueue) {
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this.rabbitOngoingQueue = rabbitOngoingQueue;
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}
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public String getRabbitReportQueue() {
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return rabbitReportQueue;
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}
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public void setRabbitReportQueue(String rabbitReportQueue) {
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this.rabbitReportQueue = rabbitReportQueue;
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}
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public String getWorkflowId() {
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return workflowId;
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}
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public void setWorkflowId(String workflowId) {
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this.workflowId = workflowId;
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}
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}
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@ -0,0 +1,12 @@
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[
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{"paramName":"p", "paramLongName":"hdfsPath", "paramDescription": "the path where storing the sequential file", "paramRequired": true},
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{"paramName":"a", "paramLongName":"apidescriptor", "paramDescription": "the JSON encoding of the API Descriptor", "paramRequired": true},
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{"paramName":"n", "paramLongName":"namenode", "paramDescription": "the Name Node URI", "paramRequired": true},
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{"paramName":"u", "paramLongName":"userHDFS", "paramDescription": "the user wich create the hdfs seq file", "paramRequired": true},
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{"paramName":"ru", "paramLongName":"rabbitUser", "paramDescription": "the user to connect with RabbitMq for messaging", "paramRequired": true},
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{"paramName":"rp", "paramLongName":"rabbitPassword", "paramDescription": "the password to connect with RabbitMq for messaging", "paramRequired": true},
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{"paramName":"rh", "paramLongName":"rabbitHost", "paramDescription": "the host of the RabbitMq server", "paramRequired": true},
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{"paramName":"ro", "paramLongName":"rabbitOngoingQueue", "paramDescription": "the name of the ongoing queue", "paramRequired": true},
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{"paramName":"rr", "paramLongName":"rabbitReportQueue", "paramDescription": "the name of the report queue", "paramRequired": true},
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{"paramName":"w", "paramLongName":"workflowId", "paramDescription": "the identifier of the dnet Workflow", "paramRequired": true}
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]
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@ -3,6 +3,7 @@ package eu.dnetlib.collector.worker;
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import com.fasterxml.jackson.databind.ObjectMapper;
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import eu.dnetlib.collector.worker.model.ApiDescriptor;
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import eu.dnetlib.collector.worker.utils.CollectorPluginFactory;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import eu.dnetlib.message.Message;
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import eu.dnetlib.message.MessageManager;
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import org.junit.After;
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@ -18,7 +19,7 @@ import static org.mockito.Mockito.*;
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public class DnetCollectorWorkerApplicationTests {
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private DnetCollectorWorkerArgumentParser argumentParser = mock(DnetCollectorWorkerArgumentParser.class);
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private ArgumentApplicationParser argumentParser = mock(ArgumentApplicationParser.class);
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private MessageManager messageManager = mock(MessageManager.class);
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private DnetCollectorWorker worker;
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@ -26,12 +27,12 @@ public class DnetCollectorWorkerApplicationTests {
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public void setup() throws Exception {
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ObjectMapper mapper = new ObjectMapper();
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final String apiJson = mapper.writeValueAsString(getApi());
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when(argumentParser.getJson()).thenReturn(apiJson);
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when(argumentParser.getNameNode()).thenReturn("file://tmp/test.seq");
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when(argumentParser.getHdfsPath()).thenReturn("/tmp/file.seq");
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when(argumentParser.getUser()).thenReturn("sandro");
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when(argumentParser.getWorkflowId()).thenReturn("sandro");
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when(argumentParser.getRabbitOngoingQueue()).thenReturn("sandro");
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when(argumentParser.get("apidescriptor")).thenReturn(apiJson);
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when(argumentParser.get("namenode")).thenReturn("file://tmp/test.seq");
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when(argumentParser.get("hdfsPath")).thenReturn("/tmp/file.seq");
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when(argumentParser.get("userHDFS")).thenReturn("sandro");
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when(argumentParser.get("workflowId")).thenReturn("sandro");
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when(argumentParser.get("rabbitOngoingQueue")).thenReturn("sandro");
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when(messageManager.sendMessage(any(Message.class), anyString(), anyBoolean(),anyBoolean())).thenAnswer(a -> {
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System.out.println("sent message: "+a.getArguments()[0]);
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@ -15,6 +15,11 @@
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<packaging>jar</packaging>
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<dependencies>
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<dependency>
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<groupId>commons-cli</groupId>
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<artifactId>commons-cli</artifactId>
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<version>1.4</version>
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</dependency>
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<dependency>
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<groupId>org.apache.commons</groupId>
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<artifactId>commons-lang3</artifactId>
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@ -44,6 +49,12 @@
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<artifactId>amqp-client</artifactId>
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<version>5.6.0</version>
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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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<version>2.4</version>
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<scope>test</scope>
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</dependency>
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</dependencies>
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</project>
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@ -0,0 +1,52 @@
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package eu.dnetlib.dhp.application;
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import com.fasterxml.jackson.databind.ObjectMapper;
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import org.apache.commons.cli.*;
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import java.util.Arrays;
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import java.util.HashMap;
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import java.util.Map;
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public class ArgumentApplicationParser {
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private final Options options = new Options();
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private final Map<String, String> objectMap = new HashMap<>();
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public ArgumentApplicationParser(final String json_configuration) throws Exception {
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final ObjectMapper mapper = new ObjectMapper();
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final OptionsParameter[] configuration = mapper.readValue(json_configuration, OptionsParameter[].class);
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createOptionMap(configuration);
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}
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public ArgumentApplicationParser(final OptionsParameter[] configuration) {
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createOptionMap(configuration);
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}
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private void createOptionMap(final OptionsParameter[] configuration) {
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Arrays.stream(configuration).map(conf -> Option.builder(conf.getParamName())
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.longOpt(conf.getParamLongName())
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.required(conf.isParamRequired())
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.desc(conf.getParamDescription())
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.hasArg() // This option has an argument.
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.build()).forEach(options::addOption);
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// HelpFormatter formatter = new HelpFormatter();
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// formatter.printHelp("myapp", null, options, null, true);
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}
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public void parseArgument(final String[] args) throws Exception {
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CommandLineParser parser = new DefaultParser();
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CommandLine cmd = parser.parse(options, args);
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Arrays.stream(cmd.getOptions()).forEach(it -> objectMap.put(it.getLongOpt(), it.getValue()));
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}
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public String get(final String key) {
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return objectMap.get(key);
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}
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public Map<String, String> getObjectMap() {
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return objectMap;
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}
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}
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@ -0,0 +1,29 @@
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package eu.dnetlib.dhp.application;
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public class OptionsParameter {
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private String paramName;
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private String paramLongName;
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private String paramDescription;
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private boolean paramRequired;
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public OptionsParameter() {
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}
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public String getParamName() {
|
||||
return paramName;
|
||||
}
|
||||
|
||||
public String getParamLongName() {
|
||||
return paramLongName;
|
||||
}
|
||||
|
||||
public String getParamDescription() {
|
||||
return paramDescription;
|
||||
}
|
||||
|
||||
public boolean isParamRequired() {
|
||||
return paramRequired;
|
||||
}
|
||||
}
|
||||
|
|
@ -0,0 +1,51 @@
|
|||
package eu.dnetlib.dhp.application;
|
||||
|
||||
import org.apache.commons.io.IOUtils;
|
||||
import org.junit.Test;
|
||||
|
||||
import static org.junit.Assert.assertEquals;
|
||||
import static org.junit.Assert.assertNotNull;
|
||||
|
||||
public class ArgumentApplicationParserTest {
|
||||
|
||||
|
||||
@Test
|
||||
public void testParseParameter() throws Exception {
|
||||
final String jsonConfiguration = IOUtils.toString(this.getClass().getResourceAsStream("/eu/dnetlib/application/parameters.json"));
|
||||
assertNotNull(jsonConfiguration);
|
||||
ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
|
||||
parser.parseArgument(new String[]{"-p", "value0",
|
||||
"-a", "value1",
|
||||
"-n", "value2",
|
||||
"-u", "value3",
|
||||
"-ru", "value4",
|
||||
"-rp", "value5",
|
||||
"-rh", "value6",
|
||||
"-ro", "value7",
|
||||
"-rr", "value8",
|
||||
"-w", "value9",
|
||||
});
|
||||
assertNotNull(parser.get("hdfsPath"));
|
||||
assertNotNull(parser.get("apidescriptor"));
|
||||
assertNotNull(parser.get("namenode"));
|
||||
assertNotNull(parser.get("userHDFS"));
|
||||
assertNotNull(parser.get("rabbitUser"));
|
||||
assertNotNull(parser.get("rabbitPassWord"));
|
||||
assertNotNull(parser.get("rabbitHost"));
|
||||
assertNotNull(parser.get("rabbitOngoingQueue"));
|
||||
assertNotNull(parser.get("rabbitReportQueue"));
|
||||
assertNotNull(parser.get("workflowId"));
|
||||
assertEquals("value0", parser.get("hdfsPath"));
|
||||
assertEquals("value1", parser.get("apidescriptor"));
|
||||
assertEquals("value2", parser.get("namenode"));
|
||||
assertEquals("value3", parser.get("userHDFS"));
|
||||
assertEquals("value4", parser.get("rabbitUser"));
|
||||
assertEquals("value5", parser.get("rabbitPassWord"));
|
||||
assertEquals("value6", parser.get("rabbitHost"));
|
||||
assertEquals("value7", parser.get("rabbitOngoingQueue"));
|
||||
assertEquals("value8", parser.get("rabbitReportQueue"));
|
||||
assertEquals("value9", parser.get("workflowId"));
|
||||
}
|
||||
|
||||
|
||||
}
|
||||
|
|
@ -0,0 +1,12 @@
|
|||
[
|
||||
{"paramName":"p", "paramLongName":"hdfsPath", "paramDescription": "the path where storing the sequential file", "paramRequired": true},
|
||||
{"paramName":"a", "paramLongName":"apidescriptor", "paramDescription": "the JSON encoding of the API Descriptor", "paramRequired": true},
|
||||
{"paramName":"n", "paramLongName":"namenode", "paramDescription": "the Name Node URI", "paramRequired": true},
|
||||
{"paramName":"u", "paramLongName":"userHDFS", "paramDescription": "the user wich create the hdfs seq file", "paramRequired": true},
|
||||
{"paramName":"ru", "paramLongName":"rabbitUser", "paramDescription": "the user to connect with RabbitMq for messaging", "paramRequired": true},
|
||||
{"paramName":"rp", "paramLongName":"rabbitPassWord", "paramDescription": "the password to connect with RabbitMq for messaging", "paramRequired": true},
|
||||
{"paramName":"rh", "paramLongName":"rabbitHost", "paramDescription": "the host of the RabbitMq server", "paramRequired": true},
|
||||
{"paramName":"ro", "paramLongName":"rabbitOngoingQueue", "paramDescription": "the name of the ongoing queue", "paramRequired": true},
|
||||
{"paramName":"rr", "paramLongName":"rabbitReportQueue", "paramDescription": "the name of the report queue", "paramRequired": true},
|
||||
{"paramName":"w", "paramLongName":"workflowId", "paramDescription": "the identifier of the dnet Workflow", "paramRequired": true}
|
||||
]
|
||||
Loading…
Reference in New Issue