Jersey + JPA deployment on Glassfish not working without restart - eclipse

Question

For a webapp project, I am using Eclipse + Jax-RS Jersey 2.5 + JPA 2.0, and I am facing some weird problems after deploying the application on Glassfish server from Eclipse.
In fact, everything works fine if I hit "Run on server", let the deployment end and then restart the Glassfish server ; btw, it's not very effective when developing, 'cause it leads to a lot a wasted time...
If I just hit "Run on server", then none of my EJB's are being injected, resulting in NullPointerException that prevent me from doing anything.
I used Maven for dependencies management, could it come from it ? Should I use another way than "Run on server" to redeploy my application after code change ?
Thanks
EDIT : Here is the architecture of the project :
src/
main/
java/
/* Application packages */
resources/
META-INF/
persistence.xml
webapp/
WEB(INF/
beans.xml
/* App templates */
pom.xml
EDIT 2 :
Even with this script it does not work :
/opt/apache-maven-3.1.1/bin/mvn clean package
/opt/glassfish4/glassfish/bin/asadmin --host localhost --port 4848 --user admin --passwordfile /opt/glassfish4/glassfish/domains/domain1/config/admin-keyfile --interactive=false --echo=true --terse=false undeploy --keepreposdir=true --isredeploy=false --cascade=false --_ignorecascade=false --_classicstyle=false configurator
/opt/glassfish4/glassfish/bin/asadmin --host localhost --port 4848 --user admin --passwordfile /opt/glassfish4/glassfish/domains/domain1/config/admin-keyfile --interactive=false --echo=true --terse=false deploy --name configurator --force=false --precompilejsp=false --verify=false --generatermistubs=false --availabilityenabled=false --asyncreplication=true --keepreposdir=true --keepfailedstubs=false --isredeploy=false --logreportederrors=true --_classicstyle=false --upload=false /home/jeremy/workspace-configurator-v2/trunk/configurator/target/configurator.war
EJB are injected with EJB annotation, and specifying the LOOKUP name :
#EJB( name=CustomApplicationService.LOOKUP_NAME )
private CustomApplicationService customApplicationService;
Class :
#Stateless
public class CustomApplicationService {
public final static String LOOKUP_NAME = "java:global/configurator/CustomApplicationService";
#PersistenceContext( name=UtilConsts.DATABASE_POOL )
private EntityManager em;
/**** */
}
Finally, my pom.xml :
<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/maven-v4_0_0.xsd">
<modelVersion>4.0.0</modelVersion>
<groupId>com.virtualsensitive</groupId>
<artifactId>configurator</artifactId>
<packaging>war</packaging>
<version>2</version>
<name>configurator</name>
<dependencies>
<dependency>
<groupId>javax.ws.rs</groupId>
<artifactId>javax.ws.rs-api</artifactId>
<version>2.0</version>
<scope>provided</scope>
</dependency>
<dependency>
<groupId>org.glassfish.jersey.containers</groupId>
<artifactId>jersey-container-servlet</artifactId>
<version>2.5.1</version>
<scope>provided</scope>
</dependency>
<dependency>
<groupId>org.glassfish.jersey.media</groupId>
<artifactId>jersey-media-json-jackson</artifactId>
<version>2.5.1</version>
<scope>provided</scope>
</dependency>
<dependency>
<groupId>org.glassfish.jersey.media</groupId>
<artifactId>jersey-media-multipart</artifactId>
<version>2.5.1</version>
<scope>provided</scope>
</dependency>
<dependency>
<groupId>org.eclipse.persistence</groupId>
<artifactId>javax.persistence</artifactId>
<version>2.1.0</version>
</dependency>
<dependency>
<groupId>org.glassfish</groupId>
<artifactId>javax.ejb</artifactId>
<version>3.1.1</version>
</dependency>
<dependency>
<groupId>org.glassfish</groupId>
<artifactId>javax.servlet</artifactId>
<version>3.1.1</version>
</dependency>
<dependency>
<groupId>org.jdom</groupId>
<artifactId>jdom2</artifactId>
<version>2.0.5</version>
</dependency>
</dependencies>
<build>
<finalName>configurator</finalName>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-compiler-plugin</artifactId>
<version>3.1</version>
<inherited>true</inherited>
<configuration>
<source>1.7</source>
<target>1.7</target>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-war-plugin</artifactId>
<version>2.4</version>
<configuration>
<failOnMissingWebXml>false</failOnMissingWebXml>
</configuration>
</plugin>
</plugins>
</build>
<properties>
<jersey.version>2.5.1</jersey.version>
<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
</properties>
</project>