0704feba1b95da51d9bb71b54833196d0954695f
kate
  Wed May 28 13:54:55 2014 -0700
DNase Combined track from ENCODE Analysis, with new data format (BED5Sources).  Similar to factorSource, but more general and lighter-weight. refs #13230.
diff --git src/hg/inc/bed5Sources.h src/hg/inc/bed5Sources.h
new file mode 100644
index 0000000..10e3ed6
--- /dev/null
+++ src/hg/inc/bed5Sources.h
@@ -0,0 +1,82 @@
+/* bed5Sources.h was originally generated by the autoSql program, which also 
+ * generated bed5Sources.c and bed5Sources.sql.  This header links the database and
+ * the RAM representation of objects. */
+
+#ifndef BED5SOURCES_H
+#define BED5SOURCES_H
+
+#include "jksql.h"
+#define BED5SOURCES_NUM_COLS 9
+
+extern char *bed5SourcesCommaSepFieldNames;
+
+struct bed5Sources
+/* BED5+ with a float data value field and a list of sources for combined data */
+    {
+    struct bed5Sources *next;  /* Next in singly linked list. */
+    unsigned bin;	/* Bin number for browser speedup */
+    char *chrom;	/* Reference sequence chromosome or scaffold */
+    unsigned chromStart;	/* Start position in chromosome */
+    unsigned chromEnd;	/* End position in chromosome */
+    char *name;	/* Name of item */
+    unsigned score;	/* Display score (0-1000) */
+    float floatScore;	/* Data score (signal, p-value, z-score, etc.) */
+    unsigned sourceCount;	/* Number of sources contributing to this item */
+    unsigned *sourceIds;	/* Comma separated list of source ids */
+    };
+
+struct bed5Sources *bed5SourcesLoadByQuery(struct sqlConnection *conn, char *query);
+/* Load all bed5Sources from table that satisfy the query given.  
+ * Where query is of the form 'select * from example where something=something'
+ * or 'select example.* from example, anotherTable where example.something = 
+ * anotherTable.something'.
+ * Dispose of this with bed5SourcesFreeList(). */
+
+void bed5SourcesSaveToDb(struct sqlConnection *conn, struct bed5Sources *el, char *tableName, int updateSize);
+/* Save bed5Sources as a row to the table specified by tableName. 
+ * As blob fields may be arbitrary size updateSize specifies the approx size
+ * of a string that would contain the entire query. Arrays of native types are
+ * converted to comma separated strings and loaded as such, User defined types are
+ * inserted as NULL. This function automatically escapes quoted strings for mysql. */
+
+struct bed5Sources *bed5SourcesLoad(char **row);
+/* Load a bed5Sources from row fetched with select * from bed5Sources
+ * from database.  Dispose of this with bed5SourcesFree(). */
+
+struct bed5Sources *bed5SourcesLoadAll(char *fileName);
+/* Load all bed5Sources from whitespace-separated file.
+ * Dispose of this with bed5SourcesFreeList(). */
+
+struct bed5Sources *bed5SourcesLoadAllByChar(char *fileName, char chopper);
+/* Load all bed5Sources from chopper separated file.
+ * Dispose of this with bed5SourcesFreeList(). */
+
+#define bed5SourcesLoadAllByTab(a) bed5SourcesLoadAllByChar(a, '\t');
+/* Load all bed5Sources from tab separated file.
+ * Dispose of this with bed5SourcesFreeList(). */
+
+struct bed5Sources *bed5SourcesCommaIn(char **pS, struct bed5Sources *ret);
+/* Create a bed5Sources out of a comma separated string. 
+ * This will fill in ret if non-null, otherwise will
+ * return a new bed5Sources */
+
+void bed5SourcesFree(struct bed5Sources **pEl);
+/* Free a single dynamically allocated bed5Sources such as created
+ * with bed5SourcesLoad(). */
+
+void bed5SourcesFreeList(struct bed5Sources **pList);
+/* Free a list of dynamically allocated bed5Sources's */
+
+void bed5SourcesOutput(struct bed5Sources *el, FILE *f, char sep, char lastSep);
+/* Print out bed5Sources.  Separate fields with sep. Follow last field with lastSep. */
+
+#define bed5SourcesTabOut(el,f) bed5SourcesOutput(el,f,'\t','\n');
+/* Print out bed5Sources as a line in a tab-separated file. */
+
+#define bed5SourcesCommaOut(el,f) bed5SourcesOutput(el,f,',',',');
+/* Print out bed5Sources as a comma separated list including final comma. */
+
+/* -------------------------------- End autoSql Generated Code -------------------------------- */
+
+#endif /* BED5SOURCES_H */
+