a9a29995abe1e134d84bb80bdae1c0318060feff
kate
  Wed Aug 6 00:41:21 2014 -0700
Tool to load GTEx (NIH Common Fund Gene Tissue Expression).  Quite similar to microarray table organization.
diff --git src/hg/inc/gtexData.h src/hg/inc/gtexData.h
new file mode 100644
index 0000000..ee4ce75
--- /dev/null
+++ src/hg/inc/gtexData.h
@@ -0,0 +1,64 @@
+/* gtexData.h was originally generated by the autoSql program, which also 
+ * generated gtexData.c and gtexData.sql.  This header links the database and
+ * the RAM representation of objects. */
+
+#ifndef GTEXDATA_H
+#define GTEXDATA_H
+
+#define GTEXDATA_NUM_COLS 3
+
+extern char *gtexDataCommaSepFieldNames;
+
+struct gtexData
+/* GTEX Expression data (RPKM levels, unmapped) */
+    {
+    struct gtexData *next;  /* Next in singly linked list. */
+    char *geneId;	/* Gene identifier (ensembl) */
+    unsigned sampleCount;	/* Number of samples */
+    float *sampleLevels;	/* RPKM expression levels */
+    };
+
+struct gtexData *gtexDataLoad(char **row);
+/* Load a gtexData from row fetched with select * from gtexData
+ * from database.  Dispose of this with gtexDataFree(). */
+
+struct gtexData *gtexDataLoadAll(char *fileName);
+/* Load all gtexData from whitespace-separated file.
+ * Dispose of this with gtexDataFreeList(). */
+
+struct gtexData *gtexDataLoadAllByChar(char *fileName, char chopper);
+/* Load all gtexData from chopper separated file.
+ * Dispose of this with gtexDataFreeList(). */
+
+#define gtexDataLoadAllByTab(a) gtexDataLoadAllByChar(a, '\t');
+/* Load all gtexData from tab separated file.
+ * Dispose of this with gtexDataFreeList(). */
+
+struct gtexData *gtexDataCommaIn(char **pS, struct gtexData *ret);
+/* Create a gtexData out of a comma separated string. 
+ * This will fill in ret if non-null, otherwise will
+ * return a new gtexData */
+
+void gtexDataFree(struct gtexData **pEl);
+/* Free a single dynamically allocated gtexData such as created
+ * with gtexDataLoad(). */
+
+void gtexDataFreeList(struct gtexData **pList);
+/* Free a list of dynamically allocated gtexData's */
+
+void gtexDataOutput(struct gtexData *el, FILE *f, char sep, char lastSep);
+/* Print out gtexData.  Separate fields with sep. Follow last field with lastSep. */
+
+#define gtexDataTabOut(el,f) gtexDataOutput(el,f,'\t','\n');
+/* Print out gtexData as a line in a tab-separated file. */
+
+#define gtexDataCommaOut(el,f) gtexDataOutput(el,f,',',',');
+/* Print out gtexData as a comma separated list including final comma. */
+
+/* -------------------------------- End autoSql Generated Code -------------------------------- */
+
+void gtexDataCreateTable(struct sqlConnection *conn, char *table);
+/* Create table with given name. */
+
+#endif /* GTEXDATA_H */
+