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/*
* File: gap-dbstruct.h
*
* Author: Simon Dear
* MRC Laboratory of Molecular Biology
* Hills Road
* Cambridge CB2 2QH
* United Kingdom
*
* Description: gap database file struct
*
* Created: 28 October 1992
* Updated:
*
*/
#include <stdio.h> /* IMPORT: NULL */
#include <string.h>
#include "g-error.h"
#include "gap-dbstruct.h"
char *file_list[] = {
"",
};
size_t block_sizes[] = {
16, /* was 4 */
};
GCardinal max_recs[] = {
100000,
};
char *gap_construct_file(char *database,char *file, char *version, char *fillbuf)
/*
* Given the database name, the file in the database and the version
* construct an amalgam of all three components.
*
* currently this is:
* {database}.{file}{version}
*/
{
static char fname[1024];
char *buffer;
if (fillbuf == NULL) {
if (strlen(database) + strlen(file) + strlen(version) + 1 >= 1024) {
(void)gerr_set(GERR_NAME_TOO_LONG);
return NULL;
}
buffer = fname;
} else
buffer = fillbuf;
sprintf(buffer,"%s.%s%s",database,file,version);
return buffer;
}
/*************************************************************
* Miscellaneous debugging routines
*************************************************************/
void dumpGDatabase(GDatabase *r)
{
printf("**\n");
printf("** GDatabase\n");
printf("** version = %d\n", r->version);
printf("** maximum_db_size = %d\n", r->maximum_db_size);
printf("** actual_db_size = %d\n", r->actual_db_size);
printf("** max_gel_len = %d\n", r->max_gel_len);
printf("** data_class = %d\n", r->data_class);
printf("** num_contigs = %d\n", r->num_contigs);
printf("** num_readings = %d\n", r->num_readings);
printf("** Nfreerecs = %d\n", r->Nfreerecs);
printf("** freerecs = %d\n", r->freerecs);
printf("** Ncontigs = %d\n", r->Ncontigs);
printf("** contigs = %d\n", r->contigs);
printf("** Nreadings = %d\n", r->Nreadings);
printf("** readings = %d\n", r->readings);
printf("** Nannotations = %d\n", r->Nannotations);
printf("** annotations = %d\n", r->annotations);
printf("** free_annotations = %d\n", r->free_annotations);
printf("** Ntemplates = %d\n", r->Ntemplates);
printf("** templates = %d\n", r->templates);
printf("** Nclones = %d\n", r->Nclones);
printf("** clones = %d\n", r->clones);
printf("** Nvectors = %d\n", r->Nvectors);
printf("** vectors = %d\n", r->vectors);
printf("**\n");
}
void dumpGReadings(GReadings *r)
{
printf("**\n");
printf("** GReadings\n");
printf("** name = %8d\n", r->name);
printf("** trace_name = %8d\n", r->trace_name);
printf("** trace_type = %8d\n", r->trace_type);
printf("** left = %8d\n", r->left);
printf("** right = %8d\n", r->right);
printf("** position = %8d\n", r->position);
printf("** length = %8d\n", r->length);
printf("** sense = %8d\n", r->sense);
printf("** sequence = %8d\n", r->sequence);
printf("** confidence = %8d\n", r->confidence);
printf("** orig_positions = %8d\n", r->orig_positions);
printf("** annotations = %8d\n", r->annotations);
printf("** sequence_length = %8d\n", r->sequence_length);
printf("** start = %8d\n", r->start);
printf("** end = %8d\n", r->end);
printf("** template = %8d\n", r->template);
printf("** strand = %8d\n", r->strand);
printf("** primer = %8d\n", r->primer);
printf("**\n");
}
void dumpGContigs(GContigs *r)
{
printf("**\n");
printf("** GContigs\n");
printf("** left = %8d\n", r->left);
printf("** right = %8d\n", r->right);
printf("** length = %8d\n", r->length);
printf("** annotations = %8d\n", r->annotations);
printf("**\n");
}
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