AFAIR, the wolifecycle-maven-plugin copies all files from src/main/resources into the Resources folder. However, you can use the maven-resources-plugin to copy the required files into the Maven output directory.
<build>
<plugins>
<plugin>
<artifactId>maven-resources-plugin</artifactId>
<version>2.6</version>
<executions>
<execution>
<id>copy-resources</id>
<phase>validate</phase>
<goals>
<goal>copy-resources</goal>
</goals>
<configuration>
<outputDirectory>${project.build.outputDirectory}</outputDirectory>
<resources>
<resource>
<directory>src/main/resources</directory>
</resource>
</resources>
</configuration>
</execution>
</executions>
</plugin>
</plugins>
</build>
See the maven-resources-plugin [1] documentation for more information.