8a0946dd6870f10cde056ba243f1fb4ec1fd16b4
angie
  Thu Feb 27 11:58:33 2014 -0800
Adding support for plain VCF custom tracks (as opposed to VCF+tabix),since users seem to want to upload VCF, and as long as the file is
not too big it will work OK.  This means adding a new track type
vcf (as opposed to vcfTabix) and supporting it in hgTracks, hgTrackUi,
hgc, hgTables and hgVai.  (and others I've forgotten?)
refs #12416

diff --git src/hg/hgTables/schema.c src/hg/hgTables/schema.c
index 092d751..1995525 100644
--- src/hg/hgTables/schema.c
+++ src/hg/hgTables/schema.c
@@ -610,58 +610,59 @@
 else
     errAbort("Unrecognized customTrack type %s", type);
 }
 
 static void showSchemaHub(char *db, char *table)
 /* Show schema on a hub track. */
 {
 struct trackDb *tdb = hashMustFindVal(fullTableToTdbHash, table);
 hubConnectAddDescription(db, tdb);
 char *type = cloneFirstWord(tdb->type);
 if (sameString(type, "bigBed"))
     showSchemaBigBed(table, tdb);
 else if (sameString(type, "bam"))
     showSchemaBam(table, tdb);
 else if (sameString(type, "vcfTabix"))
-    showSchemaVcf(table, tdb);
+    showSchemaVcf(table, tdb, TRUE);
 else
     {
     hPrintf("Binary file of type %s stored at %s<BR>\n",
 	    type, trackDbSetting(tdb, "bigDataUrl"));
     printTrackHtml(tdb);
     }
 }
 
 static void showSchemaWiki(struct trackDb *tdb, char *table)
 /* Show schema for the wikiTrack. */
 {
 hPrintf("<B>User annotations to UCSC genes or genome regions</B><BR>\n");
 showSchemaDb(wikiDbName(), tdb, table);
 printTrackHtml(tdb);
 }
 
 static void showSchema(char *db, struct trackDb *tdb, char *table)
 /* Show schema to open html page. */
 {
+boolean isTabix = FALSE;
 if (isHubTrack(table))
     showSchemaHub(db, table);
 else if (isBigBed(database, table, curTrack, ctLookupName))
     showSchemaBigBed(table, tdb);
 else if (isBamTable(table))
     showSchemaBam(table, tdb);
-else if (isVcfTable(table))
-    showSchemaVcf(table, tdb);
+else if (isVcfTable(table, &isTabix))
+    showSchemaVcf(table, tdb, isTabix);
 else if (isCustomTrack(table))
     showSchemaCt(db, table);
 else if (sameWord(table, WIKI_TRACK_TABLE))
     showSchemaWiki(tdb, table);
 else
     showSchemaDb(db, tdb, table);
 }
 
 void doTableSchema(char *db, char *table, struct sqlConnection *conn)
 /* Show schema around table (which is not described by curTrack). */
 {
 struct trackDb *tdb = NULL;
 char parseBuf[256];
 dbOverrideFromTable(parseBuf, &db, &table);
 htmlOpen("Schema for %s", table);