How to use

SequenceChunk

in

uk.ac.ebi.intact.model

@Transient
public String getSequence(Collection<SequenceChunk> seqChunks) {
  if ( ( null == seqChunks ) || 0 == ( seqChunks.size() ) ) {
    return null;
  }
  StringBuilder sequence = new StringBuilder();
  for ( SequenceChunk sequenceChunk : seqChunks ) {
    sequence.append( sequenceChunk.getSequenceChunk() );
  }
  return sequence.toString();
}

protected void removeSequenceChunk( SequenceChunk sequenceChunk ) {
  boolean removed = this.sequenceChunks.remove( sequenceChunk );
  if ( removed ) {
    sequenceChunk.setParent( this );
  }
}

  sc.setSequenceChunk( chunk );
  sc.setSequenceIndex( i );
  addSequenceChunk( sc );
} else {
  addSequenceChunk( new SequenceChunk( i, chunk ) );

  sc.setSequenceChunk( chunk );
  sc.setSequenceIndex( i );
  addSequenceChunk( sc );
} else {
  addSequenceChunk( new SequenceChunk( i, chunk ) );

  sc.setSequenceChunk( chunk );
  sc.setSequenceIndex( i );
  addSequenceChunk( sc );
} else {
  addSequenceChunk( new SequenceChunk( i, chunk ) );

protected void removeSequenceChunk( SequenceChunk sequenceChunk ) {
  boolean removed = this.sequenceChunks.remove( sequenceChunk );
  if ( removed ) {
    sequenceChunk.setParent( this );
  }
}

@Transient
public String getSequence(Collection<SequenceChunk> seqChunks) {
  if ( ( null == seqChunks ) || 0 == ( seqChunks.size() ) ) {
    return null;
  }
  StringBuilder sequence = new StringBuilder();
  for ( SequenceChunk sequenceChunk : seqChunks ) {
    sequence.append( sequenceChunk.getSequenceChunk() );
  }
  return sequence.toString();
}

protected void removeSequenceChunk( SequenceChunk sequenceChunk ) {
  boolean removed = this.sequenceChunks.remove( sequenceChunk );
  if ( removed ) {
    sequenceChunk.setParent( this );
  }
}

@Transient
public String getSequence() {
  if ( ( null == sequenceChunks ) || 0 == ( sequenceChunks.size() ) ) {
    return null;
  }
  // Re-join the sequence chunks.
  // The correct ordering is done during retrieval from the database.
  // It relies on the OJB setting (mapping)
  StringBuffer sequence = new StringBuffer();
  for ( SequenceChunk sequenceChunk : sequenceChunks ) {
    sequence.append( sequenceChunk.getSequenceChunk() );
  }
  return sequence.toString();
}

protected void addSequenceChunk( SequenceChunk sequenceChunk ) {
  if ( !this.sequenceChunks.contains( sequenceChunk ) ) {
    this.sequenceChunks.add( sequenceChunk );
    sequenceChunk.setParent( this );
  }
}

protected void addSequenceChunk( SequenceChunk sequenceChunk ) {
  if ( !this.sequenceChunks.contains( sequenceChunk ) ) {
    this.sequenceChunks.add( sequenceChunk );
    sequenceChunk.setParent( this );
  }
}

protected void addSequenceChunk( SequenceChunk sequenceChunk ) {
  if ( !this.sequenceChunks.contains( sequenceChunk ) ) {
    this.sequenceChunks.add( sequenceChunk );
    sequenceChunk.setParent( this );
  }
}