/* htmlFromBeds - htmlFromBeds - This program creates a web page with a series of hyperlinks to the beds in the bed track. This is useful when a bed track is sparse and you want to just zoom to items instead of scrolling around.\n. */
/* Copyright (C) 2011 The Regents of the University of California
* See kent/LICENSE or http://genome.ucsc.edu/license/ for licensing information. */
#include "common.h"
#include "linefile.h"
#include "hash.h"
#include "options.h"
#include "bed.h"
void usage()
/* Explain usage and exit. */
{
errAbort(
"htmlFromBeds - htmlFromBeds - This program creates a web page with a\n"
"series of hyperlinks to the beds in the bed track. This is useful\n"
"when a bed track is sparse and you want to just zoom to items instead\n"
"of scrolling around.\n"
"usage:\n"
" htmlFromBeds bedFile htmlFile db url\n"
"options:\n"
" -xxx=XXX\n"
);
}
struct bed *bedLoadAll(char *fileName)
/* Load all bed's in file. */
{
struct lineFile *lf = lineFileOpen(fileName, TRUE);
struct bed *bedList = NULL, *bed;
char *row[12];
while(lineFileRow(lf,row))
{
bed = bedLoad12(row);
slAddHead(&bedList, bed);
}
slReverse(&bedList);
lineFileClose(&lf);
return bedList;
}
void htmlFromBeds(char *bedFile, char *htmlFile, char *db, char *url)
/* htmlFromBeds - htmlFromBeds - This program creates a web page with a series of hyperlinks to the beds in the bed track. This is useful when a bed track is sparse and you want to just zoom to items instead of scrolling around.\n. */
{
struct bed *bed = NULL;
struct bed *bedList = bedLoadAll(bedFile);
FILE *htmlOut = mustOpen(htmlFile, "w");
slSort(&bedList, bedCmp);
fprintf(htmlOut, "\n\n");
for(bed = bedList; bed != NULL; bed = bed->next)
{
fprintf(htmlOut,
"- %s:%d-%d
\n",
db,
bed->chrom, bed->chromStart, bed->chromEnd,
url, bedFile,
bed->chrom, bed->chromStart, bed->chromEnd);
}
fprintf(htmlOut, "
\n");
carefulClose(&htmlOut);
}
int main(int argc, char *argv[])
/* Process command line. */
{
optionHash(&argc, argv);
if (argc != 5)
usage();
htmlFromBeds(argv[1], argv[2], argv[3], argv[4]);
return 0;
}