3fac4da56d1fef09d63739c863ccd8ba6874b59b
fanhsu
  Thu Sep 29 09:04:02 2011 -0700
Updated logic of omimGene2 for RefSeq to deal with if previous RefSeq no longer available.
diff --git src/hg/hgc/hgc.c src/hg/hgc/hgc.c
index 97cd8ff..614c7bb 100644
--- src/hg/hgc/hgc.c
+++ src/hg/hgc/hgc.c
@@ -9703,60 +9703,56 @@
 		    if (!sameWord(phenotypeClass, "-1")) printf(" (%s)", phenotypeClass);
 		    }
 
 		}
 	    printf("<BR>\n");
 	    }
 	if (disorderShown) printf("</UL>\n");
     	sqlFreeResult(&sr);
 	}
 
     // show RefSeq Gene link(s)
     safef(query, sizeof(query),
           "select distinct locusLinkId from refLink l, omim2gene g, refGene r where l.omimId=%s and g.geneId=l.locusLinkId and g.entryType='gene' and chrom='%s' and txStart = %s and txEnd= %s",
 	  itemName, chrom, chromStart, chromEnd);
     sr = sqlMustGetResult(conn, query);
-    if (sr != NULL)
+    row = sqlNextRow(sr);
+    if (row != NULL)
     	{
     	char *geneId;
-    	row = sqlNextRow(sr);
     	geneId = strdup(row[0]);
     	sqlFreeResult(&sr);
 
     	safef(query, sizeof(query),
               "select distinct l.mrnaAcc from refLink l where locusLinkId = '%s' order by mrnaAcc asc", geneId);
     	sr = sqlMustGetResult(conn, query);
     	if (sr != NULL)
 	    {
 	    int printedCnt;
 	    printedCnt = 0;
 	    while ((row = sqlNextRow(sr)) != NULL)
 	    	{
 	    	if (printedCnt < 1)
 		    printf("<B>RefSeq Gene(s): </B>");
 	    	else
 		    printf(", ");
     	        printf("<A HREF=\"%s%s&o=%s&t=%s\">", "../cgi-bin/hgc?g=refGene&i=", row[0], chromStart, chromEnd);
     	        printf("%s</A></B>", row[0]);
 	        printedCnt++;
 	        }
             if (printedCnt >= 1) printf("<BR>\n");
 	    }
-        }
-    else
-    	{
-	// skip if no RefSeq found
     	sqlFreeResult(&sr);
     	}
 
     // show Related UCSC Gene links
     safef(query, sizeof(query),
           "select distinct kgId from kgXref x, refLink l, omim2gene g where x.refseq = mrnaAcc and l.omimId=%s and g.omimId=l.omimId and g.entryType='gene'",
 	  itemName);
     sr = sqlMustGetResult(conn, query);
     if (sr != NULL)
 	{
 	int printedCnt;
 	printedCnt = 0;
 	while ((row = sqlNextRow(sr)) != NULL)
 	    {
 	    if (printedCnt < 1)