a44421a79fb36cc2036fe116b97ea3bc9590cd0c
braney
  Fri Dec 2 09:34:39 2011 -0800
removed rcsid (#295)
diff --git src/lib/jointalign.c src/lib/jointalign.c
index 9ae167c..c95b83e 100644
--- src/lib/jointalign.c
+++ src/lib/jointalign.c
@@ -1,75 +1,74 @@
 /* jointalign.c - routines for printing a joint alignment in html. 
  *
  * This file is copyright 2002 Ryan Weber, but license is hereby
  * granted for all use - public, private or commercial. */
 
 #include "common.h"
 #include "errabort.h"
 #include "jointalign.h"
 
-static char const rcsid[] = "$Id: jointalign.c,v 1.11 2003/05/06 07:33:43 kate Exp $";
 
 
 void htmlPrintJointAlignment( char *seq1, char *seq2, int columnNum, 
         int start, int end, char *strand )
 /* Print sequences 1 and 2 (assumed to be a joint alignment),
  * formatted for html output. Coordinates are printed based on
  * the start and end positions and oriented according to the
  * strand the sequences are on (+ or -). (NO COORDINATES YET)*/
 {
 int i;
 validateSeqs( seq1, seq2 );
 
 /*print the sequences with lines connecting identical residues
  *in columns of size columnNum*/
 for( i=0; i<strlen(seq1); i += columnNum )
     htmlPrintJointAlignmentLine(seq1, seq2, i, min(i+columnNum, strlen(seq1)));
 
 /*printf( "<tt><hr><br>%s<br>%s<br></tt>", seq1, seq2 );*/
 
 }
 
 void htmlPrintJointAlignmentLine( char *seq1, char *seq2, int start, int end)
 /* Prints one line of the joint alignment between seq1 and seq2,
  * from seq[start] to seq[end-1].*/
 {
 
 int i;
 printf("<tt>");
 for( i=start; i<end; i++ )
     printf("%c",seq1[i]);
 printf("<br>");
 for( i=start; i<end; i++ )
     {
     if(ucaseMatch( seq1[i], seq2[i] ))
         printf("|");
     else
         printf("&nbsp;");
     }
 printf("<br>");
 for( i=start; i<end; i++ )
     printf("%c",seq2[i]);
 printf("</tt>");
 printf("<br><br>");
    
 
 }
 
 boolean ucaseMatch( char a, char b )
 /* Case insensitive character matching */
 {
 if( toupper( a ) == toupper( b ) )
     return( TRUE );
 else 
     return( FALSE );
 }
 
 void validateSeqs( char *seq1, char *seq2 )
 /*Make sure sequences are the same length*/
 {
 if( strlen(seq1) != strlen(seq2) )
     {
     printf("%s<br>%s<br>", seq1, seq2 );
     errAbort("The sequences are not properly aligned (different lengths)<br>\n"); 
     }
 }