here i am trying out many-to-many relationship in JPA, I'v created tables "tblcourse" and "tblStudent", a student can register to many courses,
create table tblcourse(
    id integer primary key,
    name varchar(100),
    duration integer
);
create table tblcourseStudent(
    studentid integer references tblstudent(studentId),
    courseId integer references tblcourse(id),
    constraint pk_composit_cs primary key(studentid,courseId)
)
Create table tblStudent(
    studentId integer primary key,
    ……..
    ….
);
The JPA representation of the above relation is as follows, this is the code for StudentEntity.java,
@Entity
@Table(name="TBLSTUDENT")
public class StudentEntity implements Serializable{
private static final long serialVersionUID = 100034222342L;
@Id
@Column(name="STUDENTID")
private Integer studentId;
@Column(name="STUDENTNAME")
private String studentName;
@Column(name="CONTACTNO")
private String contactNumber;
@Embedded
private StudentAddress address;
@ManyToOne(fetch=FetchType.LAZY)
@JoinColumn(name="DEPTID")
private DeptEntity deptEntity;
@ManyToMany(fetch=FetchType.LAZY)
@JoinTable(name="tblcourseStudent",
            joinColumns=@JoinColumn(name="studentid"),
            inverseJoinColumns=@JoinColumn(name="courseId"))
    private List<CourseEntity> courseList;  
....
.....
.....
}
this the code for CourseEntity.java,
@Entity
@Table(name="TBLCOURSE")
public class CourseEntity implements Serializable{
        public CourseEntity(){
        }
    public CourseEntity(Integer courseId,String courseName,Integer courseDuration){
        this.courseId = courseId;
        this.courseName = courseName;
        this.courseDuration = courseDuration;
    }
    /**
     * 
     */
    private static final long serialVersionUID = -2192479237310864341L;
    @Id
    @Column(name="ID")
    private Integer courseId;
    @Column(name="NAME")
    private String courseName;
    @Column(name="DURATION")
    private Integer courseDuration;
    @ManyToMany(fetch=FetchType.LAZY)
    @JoinTable(name="tblcourseStudent",
                joinColumns=@JoinColumn(name="courseId"),
                inverseJoinColumns=@JoinColumn(name="studentid"))
    private List<StudentEntity> studentList;
    .........
}
Now, when i try to insert courses throught StudentEntity.java, the SQL queries fired at backend are
delete 
    from
        tblcourseStudent 
    where
        studentid=?
insert 
    into
        tblcourseStudent
        (studentid, courseId) 
    values
        (?, ?)
insert 
    into
        tblcourseStudent
        (studentid, courseId) 
    values
        (?, ?)
And, when i try to insert students throught CourseEntity.java, the SQL queries fired are as follows,
delete 
    from
        tblcourseStudent 
    where
        courseId=?
insert 
    into
        tblcourseStudent
        (courseId, studentid) 
    values
        (?, ?)  
in both of my case, the records are deleted and than the new mapping is inserted. So if i am inserting Courses for a student, first all the previouse courses for the student will be deleted from the third table, and the new courses will be entered,
So, my question is, if i don't want to delete old courses and add the new courses for the student how can i achieve, i.e i want to retain the old relationship,
Weather i have to achieve this programatically, or i have change the annotation, Waiting for the reply
This the code written in StudentServiceBean.java and the method "mapStudentToCourses" gets called when we map a single student to multiple Courses
@Stateless
@TransactionManagement(TransactionManagementType.CONTAINER)
public class StudentServiceBean implements StudentService{
@PersistenceContext(unitName="forPractise")
private EntityManager entityMgr;
@Resource
private SessionContext sessionContext;
@EJB
private DeptService deptService;
..........
......
...
@Override
@TransactionAttribute(TransactionAttributeType.REQUIRED)
public void mapStudentToCourses(Integer studentId,String courseIdList) throws Exception{
    List<CourseEntity> courseList = null;
    StudentEntity studentEntity  = null;
    TypedQuery<CourseEntity> courseQuery = null;        
    String query = "select c from CourseEntity c where c.courseId in ("+courseIdList+")";
    try{
        courseQuery = entityMgr.createQuery(query,CourseEntity.class);
        courseList =  courseQuery.getResultList();
        studentEntity = entityMgr.find(StudentEntity.class, studentId);
        studentEntity.setCourseList(courseList);
        entityMgr.merge(studentEntity);        
    }catch(Exception e){
        sessionContext.setRollbackOnly();
        throw e;
    }
}
This is the code when one Course is mapped to multiple students, its CourseServiceBean.java
@Stateless
@TransactionManagement(TransactionManagementType.CONTAINER)
public class CourseServiceBean implements CourseService{
@PersistenceContext(name="forPractise")
private EntityManager em;
@Resource
private SessionContext sessionCtx;
private Map<Integer, String> durationCode = null;
@EJB
private StudentService studentService;
........
......
...
@Override
@TransactionAttribute(TransactionAttributeType.REQUIRED)
public void mapCourseToStudents(Integer courseId,String studentIdList) throws Exception{
    List<StudentEntity> studentEntityList = null;
    TypedQuery<StudentEntity> studentQuery = null;
    String query = "select s from StudentEntity s where s.studentId IN ("+studentIdList+")";
    CourseEntity courseEntity = null;
    try{
        studentQuery = em.createQuery(query, StudentEntity.class);
        studentEntityList = studentQuery.getResultList();
        courseEntity = em.find(CourseEntity.class,courseId);
        courseEntity.setStudentList(studentEntityList);
        em.merge(courseEntity);
    }catch(Exception e){
        sessionCtx.setRollbackOnly();
        throw e;
    }
}
}    
this my persistence.xml file,
<?xml version="1.0" encoding="UTF-8"?>
<persistence xmlns="http://java.sun.com/xml/ns/persistence"
             xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
             xsi:schemaLocation="http://java.sun.com/xml/ns/persistence http://java.sun.com/xml/ns/persistence/persistence_2_0.xsd"
             version="2.0">
    <persistence-unit name="forPractise" transaction-type="JTA">
        <provider>org.hibernate.ejb.HibernatePersistence</provider>
        <jta-data-source>jdbc/app</jta-data-source>
        <class>com.entity.StudentEntity</class>
        <class>com.entity.DeptEntity</class>
        <class>com.entity.CourseEntity</class>      
        <properties>
            <property name="hibernate.dialect"  value="org.hibernate.dialect.DerbyDialect"  />
            <property name="hibernate.show_sql" value="true" />
            <property name="hibernate.format_sql" value="true" />                           
        </properties>
    </persistence-unit>
</persistence>
waiting for the reply....
In JPA we use the @ManyToMany annotation to model many-to-many relationships. This type of relationship can be unidirectional or bidirectional: In a unidirectional relationship only one entity in the relationship points the other. In a bidirectional relationship both entities point to each other.
To avoid this problem, you can break the many-to-many relationship into two one-to-many relationships by using a third table, called a join table. Each record in a join table includes a match field that contains the value of the primary keys of the two tables it joins.
I might be wrong but I think this is normal that when you're making your insertions, Hibernate firsts deletes all the records from the associated table.
That's the reason : when working with x-to-many association (basically, associations that are mapped through a Collection), Hibernate's persistence context will perfom the dirty checkings based on the Collection's identifier.
Let's take the mapCourseToStudents() method from your CourseServiceBean class :
    ...
    studentQuery = em.createQuery(query, StudentEntity.class);
    studentEntityList = studentQuery.getResultList();
    courseEntity = em.find(CourseEntity.class,courseId);
    courseEntity.setStudentList(studentEntityList); // replacing the previous Collection by the one you retrieved by querying the DB !!! 
    em.merge(courseEntity);
    ...
If you really want to avoid Hibernate executing the delete statement first, you should add/remove items to the Collection instead of assigning a new Collection and configure in the mapping data the operations that you want to cascade.
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