forked from D-Net/dnet-hadoop
cleanup & docs
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README.md
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README.md
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# dnet-hadoop
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Dnet-hadoop is the project that defined all the OOZIE workflows for the OpenAIRE Graph construction, processing, provisioning.
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Dnet-hadoop is the project that defined all the [OOZIE workflows](https://oozie.apache.org/) for the OpenAIRE Graph construction, processing, provisioning.
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How to build, package and run oozie workflows
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====================
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Oozie-installer is a utility allowing building, uploading and running oozie workflows. In practice, it creates a `*.tar.gz`
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package that contains resources that define a workflow and some helper scripts.
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This module is automatically executed when running:
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`mvn package -Poozie-package -Dworkflow.source.dir=classpath/to/parent/directory/of/oozie_app`
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on module having set:
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```
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<parent>
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<groupId>eu.dnetlib.dhp</groupId>
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<artifactId>dhp-workflows</artifactId>
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</parent>
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```
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in `pom.xml` file. `oozie-package` profile initializes oozie workflow packaging, `workflow.source.dir` property points to
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a workflow (notice: this is not a relative path but a classpath to directory usually holding `oozie_app` subdirectory).
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The outcome of this packaging is `oozie-package.tar.gz` file containing inside all the resources required to run Oozie workflow:
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- jar packages
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- workflow definitions
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- job properties
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- maintenance scripts
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Required properties
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====================
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In order to include proper workflow within package, `workflow.source.dir` property has to be set. It could be provided
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by setting `-Dworkflow.source.dir=some/job/dir` maven parameter.
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In oder to define full set of cluster environment properties one should create `~/.dhp/application.properties` file with
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the following properties:
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- `dhp.hadoop.frontend.user.name` - your user name on hadoop cluster and frontend machine
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- `dhp.hadoop.frontend.host.name` - frontend host name
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- `dhp.hadoop.frontend.temp.dir` - frontend directory for temporary files
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- `dhp.hadoop.frontend.port.ssh` - frontend machine ssh port
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- `oozieServiceLoc` - oozie service location required by run_workflow.sh script executing oozie job
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- `nameNode` - name node address
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- `jobTracker` - job tracker address
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- `oozie.execution.log.file.location` - location of file that will be created when executing oozie job, it contains output
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produced by `run_workflow.sh` script (needed to obtain oozie job id)
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- `maven.executable` - mvn command location, requires parameterization due to a different setup of CI cluster
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- `sparkDriverMemory` - amount of memory assigned to spark jobs driver
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- `sparkExecutorMemory` - amount of memory assigned to spark jobs executors
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- `sparkExecutorCores` - number of cores assigned to spark jobs executors
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All values will be overriden with the ones from `job.properties` and eventually `job-override.properties` stored in module's
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main folder.
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When overriding properties from `job.properties`, `job-override.properties` file can be created in main module directory
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(the one containing `pom.xml` file) and define all new properties which will override existing properties.
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One can provide those properties one by one as command line `-D` arguments.
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Properties overriding order is the following:
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1. `pom.xml` defined properties (located in the project root dir)
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2. `~/.dhp/application.properties` defined properties
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3. `${workflow.source.dir}/job.properties`
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4. `job-override.properties` (located in the project root dir)
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5. `maven -Dparam=value`
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where the maven `-Dparam` property is overriding all the other ones.
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Workflow definition requirements
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====================
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`workflow.source.dir` property should point to the following directory structure:
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[${workflow.source.dir}]
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|-job.properties (optional)
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\-[oozie_app]
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\-workflow.xml
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This property can be set using maven `-D` switch.
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`[oozie_app]` is the default directory name however it can be set to any value as soon as `oozieAppDir` property is
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provided with directory name as value.
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Sub-workflows are supported as well and sub-workflow directories should be nested within `[oozie_app]` directory.
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Creating oozie installer step-by-step
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=====================================
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Automated oozie-installer steps are the following:
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1. creating jar packages: `*.jar` and `*tests.jar` along with copying all dependencies in `target/dependencies`
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2. reading properties from maven, `~/.dhp/application.properties`, `job.properties`, `job-override.properties`
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3. invoking priming mechanism linking resources from import.txt file (currently resolving subworkflow resources)
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4. assembling shell scripts for preparing Hadoop filesystem, uploading Oozie application and starting workflow
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5. copying whole `${workflow.source.dir}` content to `target/${oozie.package.file.name}`
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6. generating updated `job.properties` file in `target/${oozie.package.file.name}` based on maven,
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`~/.dhp/application.properties`, `job.properties` and `job-override.properties`
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7. creating `lib` directory (or multiple directories for sub-workflows for each nested directory) and copying jar packages
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created at step (1) to each one of them
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8. bundling whole `${oozie.package.file.name}` directory into single tar.gz package
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Uploading oozie package and running workflow on cluster
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=======================================================
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In order to simplify deployment and execution process two dedicated profiles were introduced:
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- `deploy`
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- `run`
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to be used along with `oozie-package` profile e.g. by providing `-Poozie-package,deploy,run` maven parameters.
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The `deploy` profile supplements packaging process with:
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1) uploading oozie-package via scp to `/home/${user.name}/oozie-packages` directory on `${dhp.hadoop.frontend.host.name}` machine
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2) extracting uploaded package
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3) uploading oozie content to hadoop cluster HDFS location defined in `oozie.wf.application.path` property (generated dynamically by maven build process, based on `${dhp.hadoop.frontend.user.name}` and `workflow.source.dir` properties)
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The `run` profile introduces:
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1) executing oozie application uploaded to HDFS cluster using `deploy` command. Triggers `run_workflow.sh` script providing runtime properties defined in `job.properties` file.
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Notice: ssh access to frontend machine has to be configured on system level and it is preferable to set key-based authentication in order to simplify remote operations.
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@ -1,13 +0,0 @@
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<?xml version="1.0" encoding="UTF-8"?>
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<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd">
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<parent>
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<artifactId>dhp-workflows</artifactId>
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<groupId>eu.dnetlib.dhp</groupId>
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<version>1.2.5-SNAPSHOT</version>
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</parent>
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<modelVersion>4.0.0</modelVersion>
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<artifactId>dhp-distcp</artifactId>
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</project>
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<configuration>
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<property>
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<name>jobTracker</name>
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<value>yarnRM</value>
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</property>
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<property>
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<name>nameNode</name>
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<value>hdfs://nameservice1</value>
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</property>
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<property>
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<name>sourceNN</name>
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<value>webhdfs://namenode2.hadoop.dm.openaire.eu:50071</value>
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</property>
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<property>
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<name>oozie.use.system.libpath</name>
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<value>true</value>
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</property>
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</configuration>
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<workflow-app name="distcp" xmlns="uri:oozie:workflow:0.5">
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<parameters>
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<property>
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<name>sourceNN</name>
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<description>the source name node</description>
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</property>
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<property>
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<name>sourcePath</name>
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<description>the source path</description>
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</property>
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<property>
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<name>targetPath</name>
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<description>the target path</description>
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</property>
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<property>
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<name>hbase_dump_distcp_memory_mb</name>
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<value>6144</value>
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<description>memory for distcp action copying InfoSpace dump from remote cluster</description>
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</property>
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<property>
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<name>hbase_dump_distcp_num_maps</name>
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<value>1</value>
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<description>maximum number of simultaneous copies of InfoSpace dump from remote location</description>
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</property>
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</parameters>
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<start to="distcp"/>
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<kill name="Kill">
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<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
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</kill>
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<action name="distcp">
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<distcp xmlns="uri:oozie:distcp-action:0.2">
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<arg>-Dmapreduce.map.memory.mb=${hbase_dump_distcp_memory_mb}</arg>
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<arg>-pb</arg>
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<arg>-m ${hbase_dump_distcp_num_maps}</arg>
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<arg>${sourceNN}/${sourcePath}</arg>
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<arg>${nameNode}/${targetPath}</arg>
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</distcp>
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<ok to="End" />
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<error to="Kill" />
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</action>
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<end name="End"/>
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</workflow-app>
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@ -1,111 +0,0 @@
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General notes
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====================
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Oozie-installer is a utility allowing building, uploading and running oozie workflows. In practice, it creates a `*.tar.gz` package that contains resouces that define a workflow and some helper scripts.
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This module is automatically executed when running:
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`mvn package -Poozie-package -Dworkflow.source.dir=classpath/to/parent/directory/of/oozie_app`
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on module having set:
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<parent>
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<groupId>eu.dnetlib.dhp</groupId>
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<artifactId>dhp-workflows</artifactId>
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</parent>
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in `pom.xml` file. `oozie-package` profile initializes oozie workflow packaging, `workflow.source.dir` property points to a workflow (notice: this is not a relative path but a classpath to directory usually holding `oozie_app` subdirectory).
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The outcome of this packaging is `oozie-package.tar.gz` file containing inside all the resources required to run Oozie workflow:
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- jar packages
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- workflow definitions
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- job properties
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- maintenance scripts
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Required properties
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====================
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In order to include proper workflow within package, `workflow.source.dir` property has to be set. It could be provided by setting `-Dworkflow.source.dir=some/job/dir` maven parameter.
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In oder to define full set of cluster environment properties one should create `~/.dhp/application.properties` file with the following properties:
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- `dhp.hadoop.frontend.user.name` - your user name on hadoop cluster and frontend machine
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- `dhp.hadoop.frontend.host.name` - frontend host name
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- `dhp.hadoop.frontend.temp.dir` - frontend directory for temporary files
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- `dhp.hadoop.frontend.port.ssh` - frontend machine ssh port
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- `oozieServiceLoc` - oozie service location required by run_workflow.sh script executing oozie job
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- `nameNode` - name node address
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- `jobTracker` - job tracker address
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- `oozie.execution.log.file.location` - location of file that will be created when executing oozie job, it contains output produced by `run_workflow.sh` script (needed to obtain oozie job id)
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- `maven.executable` - mvn command location, requires parameterization due to a different setup of CI cluster
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- `sparkDriverMemory` - amount of memory assigned to spark jobs driver
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- `sparkExecutorMemory` - amount of memory assigned to spark jobs executors
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- `sparkExecutorCores` - number of cores assigned to spark jobs executors
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All values will be overriden with the ones from `job.properties` and eventually `job-override.properties` stored in module's main folder.
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When overriding properties from `job.properties`, `job-override.properties` file can be created in main module directory (the one containing `pom.xml` file) and define all new properties which will override existing properties. One can provide those properties one by one as command line -D arguments.
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Properties overriding order is the following:
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1. `pom.xml` defined properties (located in the project root dir)
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2. `~/.dhp/application.properties` defined properties
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3. `${workflow.source.dir}/job.properties`
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4. `job-override.properties` (located in the project root dir)
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5. `maven -Dparam=value`
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where the maven `-Dparam` property is overriding all the other ones.
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Workflow definition requirements
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====================
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`workflow.source.dir` property should point to the following directory structure:
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[${workflow.source.dir}]
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|-job.properties (optional)
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\-[oozie_app]
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\-workflow.xml
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This property can be set using maven `-D` switch.
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`[oozie_app]` is the default directory name however it can be set to any value as soon as `oozieAppDir` property is provided with directory name as value.
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Subworkflows are supported as well and subworkflow directories should be nested within `[oozie_app]` directory.
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Creating oozie installer step-by-step
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=====================================
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Automated oozie-installer steps are the following:
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1. creating jar packages: `*.jar` and `*tests.jar` along with copying all dependancies in `target/dependencies`
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2. reading properties from maven, `~/.dhp/application.properties`, `job.properties`, `job-override.properties`
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3. invoking priming mechanism linking resources from import.txt file (currently resolving subworkflow resources)
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4. assembling shell scripts for preparing Hadoop filesystem, uploading Oozie application and starting workflow
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5. copying whole `${workflow.source.dir}` content to `target/${oozie.package.file.name}`
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6. generating updated `job.properties` file in `target/${oozie.package.file.name}` based on maven, `~/.dhp/application.properties`, `job.properties` and `job-override.properties`
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7. creating `lib` directory (or multiple directories for subworkflows for each nested directory) and copying jar packages created at step (1) to each one of them
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8. bundling whole `${oozie.package.file.name}` directory into single tar.gz package
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||||
Uploading oozie package and running workflow on cluster
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=======================================================
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In order to simplify deployment and execution process two dedicated profiles were introduced:
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- `deploy`
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- `run`
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to be used along with `oozie-package` profile e.g. by providing `-Poozie-package,deploy,run` maven parameters.
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`deploy` profile supplements packaging process with:
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1) uploading oozie-package via scp to `/home/${user.name}/oozie-packages` directory on `${dhp.hadoop.frontend.host.name}` machine
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2) extracting uploaded package
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3) uploading oozie content to hadoop cluster HDFS location defined in `oozie.wf.application.path` property (generated dynamically by maven build process, based on `${dhp.hadoop.frontend.user.name}` and `workflow.source.dir` properties)
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`run` profile introduces:
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1) executing oozie application uploaded to HDFS cluster using `deploy` command. Triggers `run_workflow.sh` script providing runtime properties defined in `job.properties` file.
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Notice: ssh access to frontend machine has to be configured on system level and it is preferable to set key-based authentication in order to simplify remote operations.
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@ -25,7 +25,6 @@
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<modules>
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<module>dhp-workflow-profiles</module>
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<module>dhp-aggregation</module>
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<module>dhp-distcp</module>
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<module>dhp-actionmanager</module>
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<module>dhp-graph-mapper</module>
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<module>dhp-dedup-openaire</module>
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