a80a8de2fc8f3573cd184b2a4032afff1f959e16
kate
  Wed Jan 17 16:19:15 2018 -0800
First cut of interact track type.  Same display as longTabix, but with new schema to support phase 2 features. refs #17512

diff --git src/hg/inc/interact.h src/hg/inc/interact.h
new file mode 100644
index 0000000..de761c3
--- /dev/null
+++ src/hg/inc/interact.h
@@ -0,0 +1,91 @@
+/* interact.h was originally generated by the autoSql program, which also 
+ * generated interact.c and interact.sql.  This header links the database and
+ * the RAM representation of objects. */
+
+#ifndef INTERACT_H
+#define INTERACT_H
+
+#include "jksql.h"
+#define INTERACT_NUM_COLS 15
+
+extern char *interactCommaSepFieldNames; 
+struct interact
+/* Interaction between two regions, BED 6+9 */
+{
+    struct interact *next;  /* Next in singly linked list. */
+    char *chrom;	/* Chromosome (or contig, scaffold, etc.). For interchromosomal, use 2 records */
+    unsigned chromStart;	/* Start position in chromosome of lower region */
+    unsigned chromEnd;	/* End position in chromosome of upper region. For interchromosomal, set to chromStart+1 */
+    char *name;	/* Name of item, for display.  Usually 'name1/name2' or empty */
+    unsigned score;	/* Score from 0-1000 */
+    char strand[2];	/* Direction of interaction (+ or -) */
+    unsigned color;	/* Item color, as itemRgb in bed9 */
+    char *chrom1;	/* Chromosome of first region */
+    unsigned chromStart1;	/* Start position in chromosome of first region */
+    unsigned chromEnd1;	/* End position in chromosome of first region */
+    char *name1;	/* Identifier of first region. Can be used as link to related table */
+    char *chrom2;	/* Chromosome of second region */
+    unsigned chromStart2;	/* Start position in chromosome of second region */
+    unsigned chromEnd2;	/* End position in chromosome of second region */
+    char *name2;	/* Identifier of second region. Can be used as link to related table */
+    };
+
+void interactStaticLoad(char **row, struct interact *ret);
+/* Load a row from interact table into ret.  The contents of ret will
+ * be replaced at the next call to this function. */
+
+struct interact *interactLoadByQuery(struct sqlConnection *conn, char *query);
+/* Load all interact 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 interactFreeList(). */
+
+void interactSaveToDb(struct sqlConnection *conn, struct interact *el, char *tableName, int updateSize);
+/* Save interact 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 interact *interactLoad(char **row);
+/* Load a interact from row fetched with select * from interact
+ * from database.  Dispose of this with interactFree(). */
+
+struct interact *interactLoadAll(char *fileName);
+/* Load all interact from whitespace-separated file.
+ * Dispose of this with interactFreeList(). */
+
+struct interact *interactLoadAllByChar(char *fileName, char chopper);
+/* Load all interact from chopper separated file.
+ * Dispose of this with interactFreeList(). */
+
+#define interactLoadAllByTab(a) interactLoadAllByChar(a, '\t');
+/* Load all interact from tab separated file.
+ * Dispose of this with interactFreeList(). */
+
+struct interact *interactCommaIn(char **pS, struct interact *ret);
+/* Create a interact out of a comma separated string. 
+ * This will fill in ret if non-null, otherwise will
+ * return a new interact */
+
+void interactFree(struct interact **pEl);
+/* Free a single dynamically allocated interact such as created
+ * with interactLoad(). */
+
+void interactFreeList(struct interact **pList);
+/* Free a list of dynamically allocated interact's */
+
+void interactOutput(struct interact *el, FILE *f, char sep, char lastSep);
+/* Print out interact.  Separate fields with sep. Follow last field with lastSep. */
+
+#define interactTabOut(el,f) interactOutput(el,f,'\t','\n');
+/* Print out interact as a line in a tab-separated file. */
+
+#define interactCommaOut(el,f) interactOutput(el,f,',',',');
+/* Print out interact as a comma separated list including final comma. */
+
+/* -------------------------------- End autoSql Generated Code -------------------------------- */
+
+#endif /* INTERACT_H */
+