src/hg/inc/alignInfo.h 1.1

Index: src/hg/inc/alignInfo.h
===================================================================
RCS file: src/hg/inc/alignInfo.h
diff -N src/hg/inc/alignInfo.h
--- /dev/null	1 Jan 1970 00:00:00 -0000
+++ src/hg/inc/alignInfo.h	9 Sep 2009 00:30:58 -0000	1.1
@@ -0,0 +1,71 @@
+/* alignInfo.h was originally generated by the autoSql program, which also 
+ * generated alignInfo.c and alignInfo.sql.  This header links the database and
+ * the RAM representation of objects. */
+
+#ifndef ALIGNINFO_H
+#define ALIGNINFO_H
+
+#define ALIGNINFO_NUM_COLS 11
+
+struct alignInfo
+/* Aligned Features Description */
+    {
+    struct alignInfo *next;  /* Next in singly linked list. */
+    char *chrom;	/* chromosome */
+    unsigned chromStart;	/* Start position in chromosome */
+    unsigned chromEnd;	/* End position in chromosome */
+    char *name;	/* hit name */
+    unsigned score;	/* Score from 900-1000.  1000 is best */
+    char strand[2];	/* Value should be + or - */
+    unsigned hasmatch;	/* If it has match in aligned species */
+    char *orgn;	/* aligned organism */
+    char *alignChrom;	/* chromosome for aligned species */
+    unsigned alignChromStart;	/* Start position in chromosome for aligned species */
+    unsigned alignChromEnd;	/* End position in chromosome for aligned species */
+    };
+
+void alignInfoStaticLoad(char **row, struct alignInfo *ret);
+/* Load a row from alignInfo table into ret.  The contents of ret will
+ * be replaced at the next call to this function. */
+
+struct alignInfo *alignInfoLoad(char **row);
+/* Load a alignInfo from row fetched with select * from alignInfo
+ * from database.  Dispose of this with alignInfoFree(). */
+
+struct alignInfo *alignInfoLoadAll(char *fileName);
+/* Load all alignInfo from whitespace-separated file.
+ * Dispose of this with alignInfoFreeList(). */
+
+struct alignInfo *alignInfoLoadAllByChar(char *fileName, char chopper);
+/* Load all alignInfo from chopper separated file.
+ * Dispose of this with alignInfoFreeList(). */
+
+#define alignInfoLoadAllByTab(a) alignInfoLoadAllByChar(a, '\t');
+/* Load all alignInfo from tab separated file.
+ * Dispose of this with alignInfoFreeList(). */
+
+struct alignInfo *alignInfoCommaIn(char **pS, struct alignInfo *ret);
+/* Create a alignInfo out of a comma separated string. 
+ * This will fill in ret if non-null, otherwise will
+ * return a new alignInfo */
+
+void alignInfoFree(struct alignInfo **pEl);
+/* Free a single dynamically allocated alignInfo such as created
+ * with alignInfoLoad(). */
+
+void alignInfoFreeList(struct alignInfo **pList);
+/* Free a list of dynamically allocated alignInfo's */
+
+void alignInfoOutput(struct alignInfo *el, FILE *f, char sep, char lastSep);
+/* Print out alignInfo.  Separate fields with sep. Follow last field with lastSep. */
+
+#define alignInfoTabOut(el,f) alignInfoOutput(el,f,'\t','\n');
+/* Print out alignInfo as a line in a tab-separated file. */
+
+#define alignInfoCommaOut(el,f) alignInfoOutput(el,f,',',',');
+/* Print out alignInfo as a comma separated list including final comma. */
+
+/* -------------------------------- End autoSql Generated Code -------------------------------- */
+
+#endif /* ALIGNINFO_H */
+