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/*
* Add -ll in Makefile if you modify this file to convert to .c
*/
%x REGID
%x REGNAME
%x REGVAL
%{
#include <stdlib.h>
#include <string.h>
#include "header_mem_handler.h"
#include "fasta_header_handler.h"
#define MEMALLOCATED 10
#define BUFFER 5
#define YY_DECL int header_parser(int *nbf, int *memory_allocated, element_from_header **p_header)
%}
WORD [^>[:blank:]=;]+
WORDID [^>[:blank:]]+
SUP >
EOL \n
SEP ;
SPACE [[:blank:]]+
EQUAL =
%%
int i;
int size_needed;
int free_size;
char* field;
<INITIAL>{SUP} {
/*printf("\n<INITIAL>{SUP},%s",yytext);*/
BEGIN(REGID);
}
<INITIAL,REGID>{WORDID} {
i=0;
field = malloc_field(&free_size);
(*p_header)[*nbf].name = (char*) malloc(3*sizeof(char));
strcpy(((*p_header)[*nbf]).name,"id");
size_needed = strlen(yytext)+1;
(*p_header)[*nbf].value = (char*) malloc(sizeof(char)*size_needed);
strcpy(((*p_header)[*nbf]).value,yytext);
(*nbf)++;
}
<INITIAL,REGID>{SPACE} {
BEGIN(REGNAME);
}
<REGNAME>{WORD} {
/*fprintf(stderr,"\n<REGNAME>{WORD} **%s**",yytext);*/
field = store_in_field(field,yytext,&free_size,&i);
}
<REGNAME>{SPACE} {
/*fprintf(stderr,"\n<REGNAME>{SPACE} **%s**",yytext);*/
if (i != 0)
field = store_in_field(field,yytext,&free_size,&i);
}
<REGNAME>{EQUAL} {
/*fprintf(stderr,"\n<REGNAME>{EQUAL},%s",yytext);*/
field = store_in_header_table(field, &((*p_header)[*nbf].name), &free_size, &i);
BEGIN(REGVAL);
}
<REGNAME>{SEP} {
/*fprintf(stderr,"\n<REGNAME>{SEP},%s",yytext);*/
(*p_header)[*nbf].name = (char*) malloc(19*sizeof(char));
strcpy((*p_header)[*nbf].name,"definition");
field = store_in_header_table(field, &((*p_header)[*nbf].value), &free_size, &i);
p_header = check_and_realloc_mem_in_header_table(p_header, nbf, memory_allocated);
BEGIN(REGNAME);
}
<REGVAL>{WORD} {
/*fprintf(stderr,"\n<REGVAL>{WORD} **%s**\n",yytext);*/
field = store_in_field(field,yytext,&free_size,&i);
}
<REGVAL>{SPACE} {
/*fprintf(stderr,"\n<REGVAL>{SPACE} **%s**\n",yytext);*/
field = store_in_field(field,yytext,&free_size,&i);
}
<REGVAL>{SEP} {
/*fprintf(stderr,"\n<REGVAL>{SEP},%s\n",yytext);*/
field = store_in_header_table(field, &((*p_header)[*nbf].value), &free_size, &i);
p_header = check_and_realloc_mem_in_header_table(p_header, nbf, memory_allocated);
BEGIN(REGNAME);
}
<REGVAL>{EQUAL} {
/*fprintf(stderr, "\nWarning : separator ';' probably missing in header after %s",(*p_header)[*nbf].name);*/
}
<REGVAL><<EOF>> {
field = store_in_header_table(field, &((*p_header)[*nbf].value), &free_size, &i);
p_header = check_and_realloc_mem_in_header_table(p_header, nbf, memory_allocated);
end_header_table(p_header, *nbf);
free(field);
BEGIN(INITIAL);
return 0;
}
<REGNAME><<EOF>> {
/*(*p_header)[*nbf].name = (char*) malloc(sizeof(char)*19);
strcpy((*p_header)[*nbf].name,"other_informations");
field = store_in_header_table(field, &((*p_header)[*nbf].value), &free_size, &i);
p_header = check_and_realloc_mem_in_header_table(p_header, nbf, memory_allocated);
*/
end_header_table(p_header, *nbf);
free(field);
BEGIN(INITIAL);
return 0;
}
%%
int header_yywrap()
{
return 1;
}
element_from_header* header_parser_main(char *h)
{
int nbfields,memory_allocated;
element_from_header* header;
char* nbfields_n;
char* nbfields_v;
nbfields_n = (char*) malloc(9*sizeof(char));
nbfields_v = (char*) malloc(5*sizeof(char));
memory_allocated=MEMALLOCATED;
nbfields=1;
strcpy(nbfields_n, "nbfields");
strcpy(nbfields_v, "1");
header = (element_from_header*) malloc(memory_allocated * sizeof(element_from_header));
header[0].name = nbfields_n;
header[0].value = nbfields_v;
YY_BUFFER_STATE state;
state=yy_scan_string(h);
header_parser(&nbfields, &memory_allocated, &header);
yy_delete_buffer(state);
return header;
}
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