Esempi in C++ (Cpp) per gt_vector_new

Esempio n. 1

File: gt_sam_attributes.c Progetto: fransua/gemtools

GT_INLINE gt_sam_headers* gt_sam_header_new(void) {
  gt_sam_headers* sam_headers = gt_alloc(gt_sam_headers);
  sam_headers->header = gt_string_new(50); // @HD
  sam_headers->read_group = gt_vector_new(GT_ATTR_SAM_INIT_ELEMENTS,sizeof(gt_string*)); // @RG
  sam_headers->program = gt_vector_new(GT_ATTR_SAM_INIT_ELEMENTS,sizeof(gt_string*)); // @PG
  sam_headers->comments = gt_vector_new(GT_ATTR_SAM_INIT_ELEMENTS,sizeof(gt_string*)); // @ CO
  sam_headers->sequence_archive = NULL; // @SQ
  return sam_headers;
}

Esempio n. 2

File: gt_sam_attributes.c Progetto: MarcosFernandez/gemtools-cnv

GT_INLINE gt_sam_headers* gt_sam_header_new(void) {
  gt_sam_headers* sam_headers = gt_alloc(gt_sam_headers);
  sam_headers->header = NULL; // @HD
  sam_headers->read_group = gt_vector_new(GT_ATTR_SAM_INIT_ELEMENTS,sizeof(gt_sam_header_record*)); // @RG
  sam_headers->program = gt_vector_new(GT_ATTR_SAM_INIT_ELEMENTS,sizeof(gt_sam_header_record*)); // @PG
  sam_headers->sequence_dictionary = gt_vector_new(GT_ATTR_SAM_INIT_ELEMENTS,sizeof(gt_sam_header_record*)); // @SQ
  sam_headers->comments = gt_vector_new(GT_ATTR_SAM_INIT_ELEMENTS,sizeof(gt_string*)); // @ CO
  sam_headers->sequence_dictionary_sn_hash = NULL;
  sam_headers->read_group_id_hash = NULL;
  sam_headers->program_id_hash = NULL;
  return sam_headers;
}

Esempio n. 3

File: gt_buffered_input_file.c Progetto: fransua/gemtools

/*
 * Buffered map file handlers
 */
gt_buffered_input_file* gt_buffered_input_file_new(gt_input_file* const input_file) {
  GT_NULL_CHECK(input_file);
  gt_buffered_input_file* buffered_input_file = gt_alloc(gt_buffered_input_file);
  /* Input file */
  buffered_input_file->input_file = input_file;
  /* Block buffer and cursors */
  buffered_input_file->block_id = UINT32_MAX;
  buffered_input_file->block_buffer = gt_vector_new(GT_BMI_BUFFER_SIZE,sizeof(uint8_t));
  buffered_input_file->cursor = (char*) gt_vector_get_mem(buffered_input_file->block_buffer,uint8_t);
  buffered_input_file->current_line_num = UINT64_MAX;
  /* Attached output buffer */
  buffered_input_file->attached_buffered_output_file = gt_vector_new(2,sizeof(gt_buffered_output_file*));
  return buffered_input_file;
}

Esempio n. 4

File: gt_segmented_sequence.c Progetto: fransua/gemtools

/*
 * SegmentedSEQ Constructor
 */
GT_INLINE gt_segmented_sequence* gt_segmented_sequence_new(void) {
  gt_segmented_sequence* sequence = gt_alloc(gt_segmented_sequence);
  sequence->blocks = gt_vector_new(GT_SEQ_ARCHIVE_NUM_BLOCKS,sizeof(gt_compact_dna_string*));
  sequence->sequence_total_length = 0;
  sequence->seq_name = gt_string_new(10);
  return sequence;
}

Esempio n. 5

File: gt_template.c Progetto: fransua/gemtools

#define GT_TEMPLATE_TAG_INITIAL_LENGTH 100
#define GT_TEMPLATE_NUM_INITIAL_COUNTERS 10
#define GT_TEMPLATE_NUM_INITIAL_BLOCKS 2
#define GT_TEMPLATE_NUM_INITIAL_MMAPS 20

/*
 * Setup
 */
GT_INLINE gt_template* gt_template_new() {
  gt_template* template = gt_alloc(gt_template);
  template->template_id = UINT32_MAX;
  template->in_block_id = UINT32_MAX;
  template->tag = gt_string_new(GT_TEMPLATE_TAG_INITIAL_LENGTH);
  template->alignment_end1=NULL;
  template->alignment_end2=NULL;
  template->counters = gt_vector_new(GT_TEMPLATE_NUM_INITIAL_COUNTERS,sizeof(uint64_t));
  template->mmaps = gt_vector_new(GT_TEMPLATE_NUM_INITIAL_MMAPS,sizeof(gt_mmap));
  template->attributes = gt_attributes_new();
  template->alg_dictionary = NULL;
  return template;
}
GT_INLINE void gt_template_clear_handler(gt_template* const template) {
  GT_TEMPLATE_CHECK(template);
  gt_string_clear(template->tag);
  gt_attributes_clear(template->attributes);
}
GT_INLINE void gt_template_clear(gt_template* const template,const bool delete_alignments) {
  GT_TEMPLATE_CHECK(template);
  if (delete_alignments) gt_template_delete_blocks(template);
  gt_vector_clear(template->counters);
  gt_vector_clear(template->mmaps);