54406b80d5d435970989acff7b22dd6146c6b411
braney
  Sat Jan 22 15:24:59 2022 -0800
adding chrom alias support to big files

diff --git src/hg/hgc/transMapClick.c src/hg/hgc/transMapClick.c
index 6d91e51..c55dd83 100644
--- src/hg/hgc/transMapClick.c
+++ src/hg/hgc/transMapClick.c
@@ -28,30 +28,31 @@
  */
 
 #include "common.h"
 #include "hgc.h"
 #include "hui.h"
 #include "hCommon.h"
 #include "transMapClick.h"
 #include "bigTransMap.h"
 #include "bigBed.h"
 #include "bigPsl.h"
 #include "transMapStuff.h"
 #include "transMapInfo.h"
 #include "transMapSrc.h"
 #include "transMapGene.h"
 #include "genbank.h"
+#include "chromAlias.h"
 
 enum geneSrcSetType
 /* constants for source sets */
 {
     ENSEMBL_SRC_SET,
     REFSEQ_SRC_SET,
     RNA_SRC_SET,
     EST_SRC_SET,
     UCSC_GENES_SRC_SET,
     UNKNOWN_SRC_SET
 };
 
 struct transMapBag
 /* object contain collected information on a specific transMap mapping
 * this has both PSL and bigTransMap objects */
@@ -206,31 +207,31 @@
     case UNKNOWN_SRC_SET:
         return "Unknown";
     }
 return "Unknown";
 }
 
 static struct transMapBag *transMapBagLoadBig(struct trackDb *tdb, char *mappedId)
 /* load information from bigTransMap file */
 {
 struct sqlConnection *conn = hAllocConn(database);
 struct transMapBag *bag;
 AllocVar(bag);
 
 char *fileName = bbiNameFromSettingOrTable(tdb, conn, tdb->table);
 char *chrom = cartString(cart, "c");
-struct bbiFile *bbi = bigBedFileOpen(fileName);
+struct bbiFile *bbi =  bigBedFileOpenAlias(fileName, chromAliasGetHash(database));
 struct lm *lm = lmInit(0);
 int fieldIx;
 struct bptFile *bpt = bigBedOpenExtraIndex(bbi, "name", &fieldIx);
 struct bigBedInterval *bb = bigBedNameQuery(bbi, bpt, fieldIx, mappedId, lm);
 if (slCount(bb) != 1)
     errAbort("expected 1 item named \"%s\", got %d from %s", mappedId, slCount(bb), fileName);
 char *fields[bbi->fieldCount];
 char startBuf[32], endBuf[32];
 int bbFieldCount = bigBedIntervalToRow(bb, chrom, startBuf, endBuf, fields,
                                        bbi->fieldCount);
 if (bbFieldCount != BIGTRANSMAP_NUM_COLS)
     errAbort("expected %d fields in bigTransMap record, got %d in %s",
              BIGTRANSMAP_NUM_COLS, bbFieldCount, fileName);
 bag->psl = pslFromBigPsl(chrom, bb, 0, NULL, NULL); 
 bag->meta = bigTransMapLoad(fields);