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What does a Maven Artifact means in a context of runnable jar project? [duplicate]

I have a project that consist of 3 different libraries. When I run install script it takes all libraries from repo and run mvn clean install on them. But this version of library already installed in repo. Is there a way to skip install phase if version in pom.xml equal version in my local repo.
I know that I can use local repo and just set dependencies. But my boss want that our project can build only with public repos and without any our repos.

You can bypass like this
-Dmaven.install.skip=true
<profiles>
<profile>
<id>skipInstall</id>
<activation>
<property>
<name>maven.install.skip</name>
<value>true</value>
</property>
</activation>
<build>
<pluginManagement>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-install-plugin</artifactId>
<executions>
<execution>
<id>default-install</id>
<phase>none</phase>
</execution>
</executions>
</plugin>
</plugins>
</pluginManagement>
</build>
</profile>
Last week Olivier Lamy patched this jira.
MINSTALL-73

Most maven plugins can be skipped by specifying something like:
<plugin>
<artifactId>maven-install-plugin</artifactId>
<version>X.Y</version>
<configuration>
<skip>true</skip>
</configuration>
</plugin>
you can also set up build profiles to set properties and use that to determine the value. for example, running the command: mvn -Pexample would select the "example" profile. The POM would then contain:
...
<properties>
<skip.install>false</skip.install>
...
</properties>
...
<profile>
<id>example</id>
<properties>
<skip.install>false</skip.install>
</properties>
</profile>
...
<plugin>
<artifactId>maven-install-plugin</artifactId>
<version>X.Y</version>
<configuration>
<skip>${skip.install}</skip>
</configuration>
</plugin>
...
Using these POM additions, the default behavior for the install plugin will be to perform its default goal, but if the example profile is selected, then the install plugin will skip its goal.

Using what I learned from the other answers, this was the cleanest result for me.
In my super pom I added a pluginManagement/plugin to disable default-install and default-test phases when the property deployOnly is set.
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-install-plugin</artifactId>
<version>2.5.2</version>
<executions>
<execution>
<id>default-install</id>
<configuration>
<skip>${deployOnly}</skip>
</configuration>
</execution>
<execution>
<id>default-test</id>
<configuration>
<skip>${deployOnly}</skip>
</configuration>
</execution>
</executions>
</plugin>
So on the command line, I can disable install and test phases by adding -DdeployOnly.
mvn clean install #build and test everything
mvn deploy -DdeployOnly #just deploy it

I know that I can use local repo and just set dependencies. But my boss want that our project can build only with public repos and without any our repos.
Are you sure you understood correctly what you boss meant? I interpret the above as "don't install third party libraries in your local repository, use only libraries available in public repositories". This is different from "don't use your local repository" which is basically impossible, that's just not how maven works. I'd try to clarify this point.
Apart from that, I don't get the question which is very confusing (what repo are you talking about? What is the install script doing? Why do you call clean install on libraries? etc).

Extending the other answers, from the future.
Maven plugins have a surprisingly high freedom, how do they run. If they want, they can ignore/override the typical pom.xml settings. Furthermore, also the <configuration><skip>true</skip></configuration> is only a convention, nothing obligates a plugin to follow it, except that most of them is developed so.
My experiments with the recent problem show, that both #Cemo's and #MiloshBoroyevich solution should be utilized, also the plugin requires both to really let us in peace. More concretely, the only working configuration by me was this:
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-install-plugin</artifactId>
<version>2.5.2</version>
<executions>
<execution>
<id>default-install</id>
<phase>none</phase>
</execution>
</executions>
<configuration>
<skip>true</skip>
</configuration>
</plugin>

One of your options is to put the deployment to another module. I.e. have one pom.xml build the artifact and install it to the local repo, and another pom.xml to deploy it. This separation is quite common in larger projects, where the testsuite is sometimes a separate module or even a project, the packaging happens in several stages, etc.
- pom.xml - myProject-root - type=pom
- pom.xml - myProject-artifact - type=jar
- pom.xml - myProject-deploy - type=pom, does the deployment, skips it's own `install` goal

Running Java program using mvn through command line

I am trying to run my java program TopicPublisher.java via command line. There are several dependencies specified through Maven.
In the directory with the pom.xml file, I ran the following commands: mvn clean, mvn package, and java -cp target/SOM_Enrichment-1.0-SNAPSHOT.jar TopicPublisher.
I get the following error:
Error: A JNI error has occurred, please check your installation and try again
Exception in thread "main" java.lang.NoClassDefFoundError: om/solacesystems/jcsmp/JCSMPStreamingPublishEventHandler
Below is a screenshot of my directory tree:
Any ideas how to solve this?
[EDIT]
Pom File:
<?xml version="1.0" encoding="UTF-8"?>
http://maven.apache.org/xsd/maven-4.0.0.xsd">
4.0.0
<groupId>CAMM</groupId>
<artifactId>SOM_Enrichment</artifactId>
<version>1.0-SNAPSHOT</version>
<build>
<plugins>
<plugin>
<artifactId>maven-assembly-plugin</artifactId>
<version>3.1.0</version>
<configuration>
<descriptorRefs>
<descriptorRef>jar-with-dependencies</descriptorRef>
</descriptorRefs>
</configuration>
<executions>
<execution>
<id>make-assembly</id> <!-- this is used for inheritance merges -->
<phase>package</phase> <!-- bind to the packaging phase -->
<goals>
<goal>single</goal>
</goals>
</execution>
</executions>
</plugin>
</plugins>
</build>
<dependencies>
<dependency>
<groupId>com.solacesystems</groupId>
<artifactId>sol-jcsmp</artifactId>
<version>[10,)</version>
</dependency>
</dependencies>

Your program loads classes from the com.solacesystems dependency in your pom.xml, but your classpath only contains your build artifact jar. Build a fat jar, as #Kerry suggests, or use the exec-maven-plugin to run from the command line. From within your project directory (where you execute mvn package), execute:
mvn exec:java -Dexec.mainClass=TopicPublisher
The plugin builds the classpath argument from the dependencies defined in your pom. See https://www.mojohaus.org/exec-maven-plugin/ for more options.

Without seeing your full POM.xml I am assuming you have not build the final artifact to be a 'fat jar'. By this I mean that the JAR not only contains your own classes but all the third party dependencies.
You would need to use something like the Maven assembly plugin or the Maven shade pluginto do this for you. From the screenshot though I see you are using IntelliJ so you should also be able to run through your IDE obviously for just testing purposes.

Maven annotation processing processor not found

I'm new to annotation processing and I'm trying to automating it with Maven. I've put this in my pom.xml:
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-compiler-plugin</artifactId>
<version>3.0</version>
<configuration>
<annotationProcessors>
<annotationProcessor>
co.aurasphere.revolver.annotation.processor.InjectAnnotationProcessor</annotationProcessor>
<annotationProcessor>
co.aurasphere.revolver.annotation.processor.RevolverContextAnnotationProcessor</annotationProcessor>
</annotationProcessors>
<source>1.7</source>
<target>1.7</target>
</configuration>
</plugin>
</plugins>
The problem is that when I try to build the project I get a CompilationFailureException because Maven can't find the processors.
I've found other questions like this, solved by putting the dependency outside the plugin. I tried that, but nothing changed for me.
Am I missing something?
Thank you.
EDIT
Here is my dependency on another project which contains both the processor and the annotations:
<dependencies>
<dependency>
<groupId>co.aurasphere</groupId>
<artifactId>revolver-annotation-processor</artifactId>
<version>0.0.3-SNAPSHOT</version>
</dependency>
</dependencies>
EDIT 2:
After further investigation, I decided to decompile the processor JAR (built with Maven) and it happens that... my classes are not there. For some reasons, Maven is not compiling my classes into the JAR and that's why the classes are not found. I've tried figuring out what's wrong on that build (this never happened to me before and I've used Maven for a while...).
First of all, the packaging on that project is jar.
The classes are all under src/main/java.
I've checked in my pom.xml that the classpath and source path is the same.
Here's the processor pom:
<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">
<modelVersion>4.0.0</modelVersion>
<groupId>co.aurasphere</groupId>
<artifactId>revolver-annotation-processor</artifactId>
<version>0.0.3-SNAPSHOT</version>
<build>
<plugins>
<plugin>
<artifactId>maven-compiler-plugin</artifactId>
<version>3.1</version>
<configuration>
<source>1.7</source>
<target>1.7</target>
</configuration>
</plugin>
</plugins>
</build>
<dependencies>
<!-- https://mvnrepository.com/artifact/javax.inject/javax.inject -->
<dependency>
<groupId>javax.inject</groupId>
<artifactId>javax.inject</artifactId>
<version>1</version>
</dependency>
<!-- https://mvnrepository.com/artifact/org.apache.velocity/velocity -->
<dependency>
<groupId>org.apache.velocity</groupId>
<artifactId>velocity</artifactId>
<version>1.7</version>
</dependency>
</dependencies>
EDIT 3
Here's the output of a maven clean install on the processor project. Unfortunately the output is too long and I had to post an external link even if I know it's not good.
EDIT 4
Here are some screenshots of my dependency hierarchy: and .
Since the project was originally created as an Eclipse simple Java project and then converted to a Maven one, I tried to create a new Maven project and move everything to the new one in the hope that the problem was the Eclipse plugin that messed something up, but the error was still there.

This is an extended version of the accepted answer above provided by #Aurasphere. Hopefully this will give some explanation to how the proposed solution works.
First, some background to what is happening here. Say, we want a custom annotation processor. We implement it and put it into a JAR as Maven artefact, so that it could be consumed by other projects. When such projects are being compiled, we want our annotation processor to be recognised by Java compiler and used appropriately. To make this happen, one needs to tell the compiler about a new custom processor. Compiler looks in the resources and checks FQN of classes listed in META-INF/services/javax.annotation.processing.Processor file. It tries to find these classes in classpath and load them to run the processing of annotations used upon classes that are currently being compiled.
So, we want our custom class to be mentioned in this file. We can ask a user of our library to put this file manually, but this is not intuitive and users could be frustrated why the promised processing of annotation doesn't work. That's why we might want to prepare this file in advance and deliver it together with the processor inside JAR of our Maven artefact.
The problem is that if we simply put this file with FQN of the custom processor in it, it will trigger compiler during compilation of our artefact, and since the processor itself is not yet compiled, the compiler will show the error about it. So we need to skip annotation processing to avoid this. This can be done using -proc:none, or with Maven:
<plugin>
<artifactId>maven-compiler-plugin</artifactId>
<configuration>
<proc>none</proc>
</configuration>
</plugin>
We might have unit tests that will need our annotation processor. In Maven, test compilation is carried out after main sources are built, and all classes are already available including our processor. We just need to add special step during processing of test sources which would use our annotation processor. This can be done using:
<plugin>
<artifactId>maven-compiler-plugin</artifactId>
<executions>
<execution>
<id>process-test-annotations</id>
<phase>generate-test-resources</phase>
<goals>
<goal>testCompile</goal>
</goals>
<configuration>
<proc>only</proc>
<annotationProcessors>
<annotationProcessor>fully.qualified.Name</annotationProcessor>
</annotationProcessors>
</configuration>
</execution>
</executions>
</plugin>

I've found the answer myself. I've figured out that the problem was the file javax.annotation.processing.Processor in META-INF/services/ with the configuration of the annotation processor's class. In order to fix the problem I had to add the following to the pom.xml configuration of my processor project:
<build>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-compiler-plugin</artifactId>
<version>3.5.1</version>
<configuration>
<compilerArgument>
-proc:none
</compilerArgument>
<source>1.7</source>
<target>1.7</target>
</configuration>
</plugin>
</plugins>
</build>
This let Maven build the classes into the actual jar and fixed the problem. I don't know if this is a bug or not but it surely looks strange to me. Thank you everybody for the help!

The easiest way is to register the annotation processor in the META-INF/services directory of the revolver-annotation-processor artifact. No Maven compiler configuration is needed.
Check if it's already registered, if not, register it yourself if you control the source code.
https://docs.oracle.com/javase/8/docs/api/java/util/ServiceLoader.html
If you control the source code I also recommend to package the processor in the same artifact as the annotations. Like this, whenever you're using one of the annotations, the annotation processor is also picked-up by the compiler.

The accepted answer here works by disabling all annotation processing, which may not be suitable if other annotation processors need to run during the compilation. Instead, the SPI configuration file listing the newly compiled annotation processor can be added in a post-processing step. I added a directory src/main/post-resources to my project and this plugin configuration:
<plugin>
<artifactId>maven-resources-plugin</artifactId>
<version>3.3.0</version>
<executions>
<execution>
<id>annotation-processor-spi</id>
<phase>process-classes</phase>
<goals>
<goal>copy-resources</goal>
</goals>
<configuration>
<outputDirectory>${project.build.outputDirectory}</outputDirectory>
<resources>
<resource>
<directory>src/main/post-resources</directory>
</resource>
</resources>
</configuration>
</execution>
</executions>
</plugin>

How to generate separate jar files for application, source, and documentation (for central.sonatype.org)

Sonatype has a repository that I want to deploy a jar file to, and they ask for separate files for application, sources, and javadocs:
Example:
example-application-1.4.7.pom
example-application-1.4.7.jar
example-application-1.4.7-sources.jar
example-application-1.4.7-javadoc.jar
In Scala SBT, I have a command called "package" that generates the jar file for the project, but that only generates "example-application-1.4.7.jar".
Question: What should I do to generate the other two jar files?

In Maven, in order to get the additional -sources and -javadoc artifacts, add to your POM file the following:
<build>
<plugins>
<!-- additional plugin configurations, if any.. -->
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-source-plugin</artifactId>
<version>3.0.0</version>
<executions>
<execution>
<goals>
<goal>jar</goal>
</goals>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-javadoc-plugin</artifactId>
<version>2.10.3</version>
<executions>
<execution>
<goals>
<goal>jar</goal>
</goals>
</execution>
</executions>
</plugin>
</plugins>
</build>
Note the snippet above:
We are invoking the Maven Source Plugin to create an additional jar files for sources
We are invoking the Maven Javadoc Plugin to create an additional jar files for javadoc
Executing
mvn clean package
You will find these two additional jars in the target folder.
The .pom file instead is generated during the install phase, but it is not placed under the target folder. Basically, it is a copy of your pom.xml file, with a different extension and used by Maven during the dependency mediation process to check which transitive dependencies are required by the concerned artifact.
Executing
mvn clean install
Maven will install the artifact in your local cache (in your machine), under path_to_cache/.m2/repository/your_groupId/your_artifactId/your_version/. In this folder, you will also find the .pom file, which normally you don't need to distribute (it is created automatically by Maven).
Further note: you probably don't want to generate these additional jar files at each and every build, so to speed up normal builds and have them only on demand, you could wrap the snippet above in a Maven profile.
You can achieve this by removing the snippet above from your build section and add a further section at the end of your pom:
<profiles>
<profile>
<id>prepare-distribution</id>
<build>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-source-plugin</artifactId>
<version>3.0.0</version>
<executions>
<execution>
<goals>
<goal>jar</goal>
</goals>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-javadoc-plugin</artifactId>
<version>2.10.3</version>
<executions>
<execution>
<goals>
<goal>jar</goal>
</goals>
</execution>
</executions>
</plugin>
</plugins>
</build>
</profile>
</profiles>
So that normal builds would not create these jars anymore, but when executing the following:
mvn clean install -Pprepare-distribution
You would instead get them back. the -P option is actually activating on demand the profile defined with the id prepare-distribution.
With Maven 3 a default profile already comes as part of the super pom which perform exactly the same actions (sources and javadoc artifact), hence no need to add anything to your existing project. Simply run:
mvn clean install -Prelease-profile
Or, to activate it via a property
mvn clean install -DperformRelease=true
However, as also specified in the super pom, this profile may be removed in future releases (although there since first Maven 3 version till version 3.3.9 so far)
NOTE: The release profile will be removed from future versions of the super POM
The main reason behind this warning is most probably to push for the usage of the Maven Release Plugin, which indirectly makes use of this profile via the useReleaseProfile option of the release:perform goal.
As highlighted by comments, if you are not familiar with maven (especially via console) I would definitely recommend to
Go through the official Maven in 5 minutes documentation for a quick but worthy look.
Play with Maven from the command line, is there where Maven gives you its best. IDE integrations are great, but command line is the real turning point.
Then play with the POM customization above, to get familiar with some concepts and behaviors, first directly as part of your default build, then moved to a profile.
Then, and only then, move to the Maven Release Plugin usage. I recommend it as last step because you would already have acquired more confidence and understanding and see it as less magic and more reasonable approach.

NoClassDefFoundError on Maven dependency

My first use of Maven and I'm stuck with dependencies.
I created a Maven project with Eclipse and added dependencies, and it was working without problems.
But when I try to run it via command line:
$ mvn package # successfully completes
$ java -cp target/bil138_4-0.0.1-SNAPSHOT.jar tr.edu.hacettepe.cs.b21127113.bil138_4.App # NoClassDefFoundError for dependencies
It downloads dependencies, successfully builds, but when I try to run it, I get NoClassDefFoundError:
Exception in thread "main" java.lang.NoClassDefFoundError: org/codehaus/jackson/JsonParseException
at tr.edu.hacettepe.cs.b21127113.bil138_4.db.DatabaseManager.<init>(DatabaseManager.java:16)
at tr.edu.hacettepe.cs.b21127113.bil138_4.db.DatabaseManager.<init>(DatabaseManager.java:22)
at tr.edu.hacettepe.cs.b21127113.bil138_4.App.main(App.java:10)
Caused by: java.lang.ClassNotFoundException: org.codehaus.jackson.JsonParseException
at java.net.URLClassLoader$1.run(URLClassLoader.java:217)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(URLClassLoader.java:205)
at java.lang.ClassLoader.loadClass(ClassLoader.java:321)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:294)
at java.lang.ClassLoader.loadClass(ClassLoader.java:266)
... 3 more
My pom.xml is like this:
<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">
<modelVersion>4.0.0</modelVersion>
<groupId>tr.edu.hacettepe.cs.b21127113</groupId>
<artifactId>bil138_4</artifactId>
<version>0.0.1-SNAPSHOT</version>
<packaging>jar</packaging>
<name>bil138_4</name>
<url>http://maven.apache.org</url>
<properties>
<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
</properties>
<dependencies>
<dependency>
<groupId>org.codehaus.jackson</groupId>
<artifactId>jackson-core-asl</artifactId>
</dependency>
<dependency>
<groupId>org.codehaus.jackson</groupId>
<artifactId>jackson-mapper-asl</artifactId>
</dependency>
</dependencies>
<dependencyManagement>
<dependencies>
<dependency>
<groupId>org.codehaus.jackson</groupId>
<artifactId>jackson-core-asl</artifactId>
<version>1.9.6</version>
</dependency>
<dependency>
<groupId>org.codehaus.jackson</groupId>
<artifactId>jackson-mapper-asl</artifactId>
<version>1.9.6</version>
</dependency>
</dependencies>
</dependencyManagement>
</project>
Can anyone help me?

By default, Maven doesn't bundle dependencies in the JAR file it builds, and you're not providing them on the classpath when you're trying to execute your JAR file at the command-line. This is why the Java VM can't find the library class files when trying to execute your code.
You could manually specify the libraries on the classpath with the -cp parameter, but that quickly becomes tiresome.
A better solution is to "shade" the library code into your output JAR file. There is a Maven plugin called the maven-shade-plugin to do this. You need to register it in your POM, and it will automatically build an "uber-JAR" containing your classes and the classes for your library code too when you run mvn package.
To simply bundle all required libraries, add the following to your POM:
<project>
...
<build>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-shade-plugin</artifactId>
<version>3.4.1</version>
<executions>
<execution>
<phase>package</phase>
<goals>
<goal>shade</goal>
</goals>
</execution>
</executions>
</plugin>
</plugins>
</build>
...
</project>
Once this is done, you can rerun the commands you used above:
$ mvn package
$ java -cp target/bil138_4-0.0.1-SNAPSHOT.jar tr.edu.hacettepe.cs.b21127113.bil138_4.App
If you want to do further configuration of the shade plugin in terms of what JARs should be included, specifying a Main-Class for an executable JAR file, and so on, see the "Examples" section on the maven-shade-plugin site.

when I try to run it, I get NoClassDefFoundError
Run it how? You're probably trying to run it with eclipse without having correctly imported your maven classpath. See the m2eclipse plugin for integrating maven with eclipse for that.
To verify that your maven config is correct, you could run your app with the exec plugin using:
mvn exec:java -D exec.mainClass=<your main class>
Update: First, regarding your error when running exec:java, your main class is tr.edu.hacettepe.cs.b21127113.bil138_4.App. When talking about class names, they're (almost) always dot-separated. The simple class name is just the last part: App in your case. The fully-qualified name is the full package plus the simple class name, and that's what you give to maven or java when you want to run something. What you were trying to use was a file system path to a source file. That's an entirely different beast. A class name generally translates directly to a class file that's found in the class path, as compared to a source file in the file system. In your specific case, the class file in question would probably be at target/classes/tr/edu/hacettepe/cs/b21127113/bil138_4/App.class because maven compiles to target/classes, and java traditionally creates a directory for each level of packaging.
Your original problem is simply that you haven't put the Jackson jars on your class path. When you run a java program from the command line, you have to set the class path to let it know where it can load classes from. You've added your own jar, but not the other required ones. Your comment makes me think you don't understand how to manually build a class path. In short, the class path can have two things: directories containing class files and jars containing class files. Directories containing jars won't work. For more details on building a class path, see "Setting the class path" and the java and javac tool documentation.
Your class path would need to be at least, and without the line feeds:
target/bil138_4-0.0.1-SNAPSHOT.jar:
/home/utdemir/.m2/repository/org/codehaus/jackson/jackson-core-asl/1.9.6/jackson-core-asl-1.9.6.jar:
/home/utdemir/.m2/repository/org/codehaus/jackson/jackson-mapper-asl/1.9.6/jackson-mapper-asl-1.9.6.jar
Note that the separator on Windows is a semicolon (;).
I apologize for not noticing it sooner. The problem was sitting there in your original post, but I missed it.

You have to make classpath in pom file for your dependency. Therefore you have to copy all the dependencies into one place.
Check my blog.
<build>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-dependency-plugin</artifactId>
<version>2.1</version>
<executions>
<execution>
<id>copy-dependencies</id>
<phase>package</phase>
<goals>
<goal>copy-dependencies</goal>
</goals>
<configuration>
<outputDirectory>${project.build.directory}/lib</outputDirectory>
<overWriteReleases>false</overWriteReleases>
<overWriteSnapshots>false</overWriteSnapshots>
<overWriteIfNewer>true</overWriteIfNewer>
</configuration>
</execution>
</executions>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-jar-plugin</artifactId>
<version>2.4</version>
<configuration>
<archive>
<manifest>
<addClasspath>true</addClasspath>
<classpathPrefix>lib/</classpathPrefix>
<mainClass>$fullqualified path to your main Class</mainClass>
</manifest>
</archive>
</configuration>
</plugin>
</plugins>
</build>

This is due to Morphia jar not being part of your output war/jar. Eclipse or local build includes them as part of classpath, but remote builds or auto/scheduled build don't consider them part of classpath.
You can include dependent jars using plugin.
Add below snippet into your pom's plugins section
<plugin>
<artifactId>maven-assembly-plugin</artifactId>
<version>3.0.0</version>
<configuration>
<descriptorRefs>
<descriptorRef>jar-with-dependencies</descriptorRef>
</descriptorRefs>
</configuration>
</plugin>

For some reason, the lib is present while compiling, but missing while running.
My situation is, two versions of one lib conflict.
For example, A depends on B and C, while B depends on D:1.0, C depends on D:1.1, maven may
just import D:1.0. If A uses one class which is in D:1.1 but not in D:1.0, a NoClassDefFoundError will be throwed.
If you are in this situation too, you need to resolve the dependency conflict.

I was able to work around it by running mvn install:install-file with -Dpackaging=class. Then adding entry to POM as described here:

Choosing to Project -> Clean should resolve this