src/hg/affyTransciptome/htmlFromBeds.c e70152e44cc66cc599ff6b699eb8adc07f3e656a

e70152e44cc66cc599ff6b699eb8adc07f3e656a
kent
  Sat May 24 21:09:34 2014 -0700
Adding Copyright NNNN Regents of the University of California to all files I believe with reasonable certainty were developed under UCSC employ or as part of Genome Browser copyright assignment.
diff --git src/hg/affyTransciptome/htmlFromBeds.c src/hg/affyTransciptome/htmlFromBeds.c
index e06981b..754f5a1 100644
--- src/hg/affyTransciptome/htmlFromBeds.c
+++ src/hg/affyTransciptome/htmlFromBeds.c
@@ -1,69 +1,72 @@
 /* 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 README in this or parent directory 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, "<html><body>\n<ul>\n");
 for(bed = bedList; bed != NULL; bed = bed->next)
     {
     fprintf(htmlOut, 
 	    "<li><a href=\"http://genome.ucsc.edu/cgi-bin/hgTracks?db=%s&position=%s:%d-%d&hgt.customText=%s/%s\">%s:%d-%d</a></li>\n",
 	    db,
 	    bed->chrom, bed->chromStart, bed->chromEnd,
 	    url, bedFile,
 	    bed->chrom, bed->chromStart, bed->chromEnd);
     }
 fprintf(htmlOut, "</ul></body></html>\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;
 }