c18ab1c5577b32368f3cf24abfe1664567a8420e
markd
Mon Sep 22 08:59:48 2025 -0700
generate correct download link for BAMs in /gbdb #36390
diff --git src/hg/hgTables/bam.c src/hg/hgTables/bam.c
index 8a42df6df97..c60ce61ed6a 100644
--- src/hg/hgTables/bam.c
+++ src/hg/hgTables/bam.c
@@ -373,33 +373,36 @@
lmCleanup(&lm);
bamClose(&fh);
freez(&fileName);
return randomIdList;
}
void showSchemaBam(char *table, struct trackDb *tdb)
/* Show schema on bam. */
{
struct sqlConnection *conn = NULL;
if (!trackHubDatabase(database))
conn = hAllocConn(database);
char *fileName = bamFileName(table, conn, NULL);
struct asObject *as = bamAsObj();
+char *downPrefix = "";
+if (startsWith("/gbdb", fileName))
+ downPrefix = "https://hgdownload.soe.ucsc.edu";
hPrintf("Database: %s", database);
hPrintf(" Primary Table: %s
", table);
-hPrintf("BAM File: %s", fileName);
+hPrintf("BAM File Download: %s%s", downPrefix, fileName, downPrefix, fileName);
hPrintf("
\n");
hPrintf("Format description: %s
", as->comment);
hPrintf("See the SAM Format Specification for more details
\n",
"http://samtools.sourceforge.net/SAM1.pdf");
/* Put up table that describes fields. */
hTableStart();
hPrintf("