afa4cc7f36a1d3d5c2e4dc4f20fbf6332a4258a3
hiram
  Thu Sep 15 11:28:56 2016 -0700
allow chrom name lookup to use the new chromXref table refs #18027

diff --git src/hg/lib/chromXref.h src/hg/lib/chromXref.h
new file mode 100644
index 0000000..a6709fd
--- /dev/null
+++ src/hg/lib/chromXref.h
@@ -0,0 +1,69 @@
+/* chromXref.h was originally generated by the autoSql program, which also 
+ * generated chromXref.c and chromXref.sql.  This header links the database and
+ * the RAM representation of objects. */
+
+#ifndef CHROMXREF_H
+#define CHROMXREF_H
+
+#define CHROMXREF_NUM_COLS 4
+
+extern char *chromXrefCommaSepFieldNames;
+
+struct chromXref
+/* correspondence of UCSC chromosome names to refseq, genbank, and ensembl names */
+    {
+    struct chromXref *next;  /* Next in singly linked list. */
+    char *ucsc;	/* UCSC genome browser chromosome name */
+    char *refseq;	/* RefSeq assembly accession (n/a when not available) */
+    char *genbank;	/* Genbank assembly accession (n/a when not available) */
+    char *ensembl;	/* Ensembl chromosome name (n/a when not available) */
+    };
+
+void chromXrefStaticLoad(char **row, struct chromXref *ret);
+/* Load a row from chromXref table into ret.  The contents of ret will
+ * be replaced at the next call to this function. */
+
+struct chromXref *chromXrefLoad(char **row);
+/* Load a chromXref from row fetched with select * from chromXref
+ * from database.  Dispose of this with chromXrefFree(). */
+
+struct chromXref *chromXrefLoadAll(char *fileName);
+/* Load all chromXref from whitespace-separated file.
+ * Dispose of this with chromXrefFreeList(). */
+
+struct chromXref *chromXrefLoadAllByChar(char *fileName, char chopper);
+/* Load all chromXref from chopper separated file.
+ * Dispose of this with chromXrefFreeList(). */
+
+#define chromXrefLoadAllByTab(a) chromXrefLoadAllByChar(a, '\t');
+/* Load all chromXref from tab separated file.
+ * Dispose of this with chromXrefFreeList(). */
+
+struct chromXref *chromXrefCommaIn(char **pS, struct chromXref *ret);
+/* Create a chromXref out of a comma separated string. 
+ * This will fill in ret if non-null, otherwise will
+ * return a new chromXref */
+
+void chromXrefFree(struct chromXref **pEl);
+/* Free a single dynamically allocated chromXref such as created
+ * with chromXrefLoad(). */
+
+void chromXrefFreeList(struct chromXref **pList);
+/* Free a list of dynamically allocated chromXref's */
+
+void chromXrefOutput(struct chromXref *el, FILE *f, char sep, char lastSep);
+/* Print out chromXref.  Separate fields with sep. Follow last field with lastSep. */
+
+#define chromXrefTabOut(el,f) chromXrefOutput(el,f,'\t','\n');
+/* Print out chromXref as a line in a tab-separated file. */
+
+#define chromXrefCommaOut(el,f) chromXrefOutput(el,f,',',',');
+/* Print out chromXref as a comma separated list including final comma. */
+
+void chromXrefJsonOutput(struct chromXref *el, FILE *f);
+/* Print out chromXref in JSON format. */
+
+/* -------------------------------- End autoSql Generated Code -------------------------------- */
+
+#endif /* CHROMXREF_H */
+