Ejemplo n.º 1
0
GT_INLINE void gt_sam_header_clear(gt_sam_headers* const sam_headers) {
  GT_SAM_HEADERS_CHECK(sam_headers);
  // Header
  gt_string_clear(sam_headers->header);
  // Read group
  GT_VECTOR_ITERATE(sam_headers->read_group,record_h,nh,gt_string*) { gt_string_delete(*record_h); }
  gt_vector_clear(sam_headers->read_group);
  // Program
  GT_VECTOR_ITERATE(sam_headers->program,record_p,np,gt_string*) { gt_string_delete(*record_p); }
  gt_vector_clear(sam_headers->program);
  // Comments
  GT_VECTOR_ITERATE(sam_headers->comments,comment,nc,gt_string*) { gt_string_delete(*comment); }
  gt_vector_clear(sam_headers->comments);
  // Seq Archive
  sam_headers->sequence_archive=NULL;
}
Ejemplo n.º 2
0
GT_INLINE void gt_segmented_sequence_clear(gt_segmented_sequence* const sequence) {
  GT_SEGMENTED_SEQ_CHECK(sequence);
  GT_VECTOR_ITERATE(sequence->blocks,block,block_num,uint64_t*) {
    if (*block) gt_free(*block);
  }
  gt_vector_clear(sequence->blocks);
  gt_string_clear(sequence->seq_name);
}
GT_INLINE void gt_sam_header_clear(gt_sam_headers* const sam_headers) {
  GT_SAM_HEADERS_CHECK(sam_headers);
  // Header
  if(sam_headers->header) {
  	gt_sam_header_record_delete(sam_headers->header);
  	sam_headers->header = NULL;
  }
  // Read group
  GT_VECTOR_ITERATE(sam_headers->read_group,record_h,nh,gt_sam_header_record*) { gt_sam_header_record_delete(*record_h); }
  gt_vector_clear(sam_headers->read_group);
  if(sam_headers->read_group_id_hash) gt_shash_clear(sam_headers->read_group_id_hash,true);
  // Program
  GT_VECTOR_ITERATE(sam_headers->program,record_p,np,gt_sam_header_record*) { gt_sam_header_record_delete(*record_p); }
  gt_vector_clear(sam_headers->program);
  if(sam_headers->program_id_hash) gt_shash_clear(sam_headers->program_id_hash,true);
  // Seq Dictionary
  GT_VECTOR_ITERATE(sam_headers->sequence_dictionary,record_s,ns,gt_sam_header_record*) { gt_sam_header_record_delete(*record_s); }
  gt_vector_clear(sam_headers->sequence_dictionary);
  if(sam_headers->sequence_dictionary_sn_hash) gt_shash_clear(sam_headers->sequence_dictionary_sn_hash,true);
  // Comments
  GT_VECTOR_ITERATE(sam_headers->comments,comment,nc,gt_string*) { gt_string_delete(*comment); }
  gt_vector_clear(sam_headers->comments);
}