cd53a755e4e7dfbbfdeeef59b03c8261146d2a82
baertsch
  Sun May 15 03:16:54 2011 -0700
add ucscRetroOrtho table and code for ucscRetro child table
diff --git src/hg/lib/ucscRetroOrtho.c src/hg/lib/ucscRetroOrtho.c
new file mode 100644
index 0000000..daf4daa
--- /dev/null
+++ src/hg/lib/ucscRetroOrtho.c
@@ -0,0 +1,189 @@
+/* ucscRetroOrtho.c was originally generated by the autoSql program, which also 
+ * generated ucscRetroOrtho.h and ucscRetroOrtho.sql.  This module links the database and
+ * the RAM representation of objects. */
+
+#include "common.h"
+#include "linefile.h"
+#include "dystring.h"
+#include "jksql.h"
+#include "ucscRetroOrtho.h"
+
+static char const rcsid[] = "$Id:$";
+
+void ucscRetroOrthoStaticLoad(char **row, struct ucscRetroOrtho *ret)
+/* Load a row from ucscRetroOrtho table into ret.  The contents of ret will
+ * be replaced at the next call to this function. */
+{
+
+ret->name = row[0];
+ret->db = row[1];
+ret->overlap = sqlSigned(row[2]);
+}
+
+struct ucscRetroOrtho *ucscRetroOrthoLoadByQuery(struct sqlConnection *conn, char *query)
+/* Load all ucscRetroOrtho 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 ucscRetroOrthoFreeList(). */
+{
+struct ucscRetroOrtho *list = NULL, *el;
+struct sqlResult *sr;
+char **row;
+
+sr = sqlGetResult(conn, query);
+while ((row = sqlNextRow(sr)) != NULL)
+    {
+    el = ucscRetroOrthoLoad(row);
+    slAddHead(&list, el);
+    }
+slReverse(&list);
+sqlFreeResult(&sr);
+return list;
+}
+
+void ucscRetroOrthoSaveToDb(struct sqlConnection *conn, struct ucscRetroOrtho *el, char *tableName, int updateSize)
+/* Save ucscRetroOrtho 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. Note that strings must be escaped to allow insertion into the database.
+ * For example "autosql's features include" --> "autosql\'s features include" 
+ * If worried about this use ucscRetroOrthoSaveToDbEscaped() */
+{
+struct dyString *update = newDyString(updateSize);
+dyStringPrintf(update, "insert into %s values ( '%s','%s',%d)", 
+	tableName,  el->name,  el->db,  el->overlap);
+sqlUpdate(conn, update->string);
+freeDyString(&update);
+}
+
+void ucscRetroOrthoSaveToDbEscaped(struct sqlConnection *conn, struct ucscRetroOrtho *el, char *tableName, int updateSize)
+/* Save ucscRetroOrtho 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. Automatically 
+ * escapes all simple strings (not arrays of string) but may be slower than ucscRetroOrthoSaveToDb().
+ * For example automatically copies and converts: 
+ * "autosql's features include" --> "autosql\'s features include" 
+ * before inserting into database. */ 
+{
+struct dyString *update = newDyString(updateSize);
+char  *name, *db;
+name = sqlEscapeString(el->name);
+db = sqlEscapeString(el->db);
+
+dyStringPrintf(update, "insert into %s values ( '%s','%s',%d)", 
+	tableName,  name,  db,  el->overlap);
+sqlUpdate(conn, update->string);
+freeDyString(&update);
+freez(&name);
+freez(&db);
+}
+
+struct ucscRetroOrtho *ucscRetroOrthoLoad(char **row)
+/* Load a ucscRetroOrtho from row fetched with select * from ucscRetroOrtho
+ * from database.  Dispose of this with ucscRetroOrthoFree(). */
+{
+struct ucscRetroOrtho *ret;
+
+AllocVar(ret);
+ret->name = cloneString(row[0]);
+ret->db = cloneString(row[1]);
+ret->overlap = sqlSigned(row[2]);
+return ret;
+}
+
+struct ucscRetroOrtho *ucscRetroOrthoLoadAll(char *fileName) 
+/* Load all ucscRetroOrtho from a whitespace-separated file.
+ * Dispose of this with ucscRetroOrthoFreeList(). */
+{
+struct ucscRetroOrtho *list = NULL, *el;
+struct lineFile *lf = lineFileOpen(fileName, TRUE);
+char *row[3];
+
+while (lineFileRow(lf, row))
+    {
+    el = ucscRetroOrthoLoad(row);
+    slAddHead(&list, el);
+    }
+lineFileClose(&lf);
+slReverse(&list);
+return list;
+}
+
+struct ucscRetroOrtho *ucscRetroOrthoLoadAllByChar(char *fileName, char chopper) 
+/* Load all ucscRetroOrtho from a chopper separated file.
+ * Dispose of this with ucscRetroOrthoFreeList(). */
+{
+struct ucscRetroOrtho *list = NULL, *el;
+struct lineFile *lf = lineFileOpen(fileName, TRUE);
+char *row[3];
+
+while (lineFileNextCharRow(lf, chopper, row, ArraySize(row)))
+    {
+    el = ucscRetroOrthoLoad(row);
+    slAddHead(&list, el);
+    }
+lineFileClose(&lf);
+slReverse(&list);
+return list;
+}
+
+struct ucscRetroOrtho *ucscRetroOrthoCommaIn(char **pS, struct ucscRetroOrtho *ret)
+/* Create a ucscRetroOrtho out of a comma separated string. 
+ * This will fill in ret if non-null, otherwise will
+ * return a new ucscRetroOrtho */
+{
+char *s = *pS;
+
+if (ret == NULL)
+    AllocVar(ret);
+ret->name = sqlStringComma(&s);
+ret->db = sqlStringComma(&s);
+ret->overlap = sqlSignedComma(&s);
+*pS = s;
+return ret;
+}
+
+void ucscRetroOrthoFree(struct ucscRetroOrtho **pEl)
+/* Free a single dynamically allocated ucscRetroOrtho such as created
+ * with ucscRetroOrthoLoad(). */
+{
+struct ucscRetroOrtho *el;
+
+if ((el = *pEl) == NULL) return;
+freeMem(el->name);
+freeMem(el->db);
+freez(pEl);
+}
+
+void ucscRetroOrthoFreeList(struct ucscRetroOrtho **pList)
+/* Free a list of dynamically allocated ucscRetroOrtho's */
+{
+struct ucscRetroOrtho *el, *next;
+
+for (el = *pList; el != NULL; el = next)
+    {
+    next = el->next;
+    ucscRetroOrthoFree(&el);
+    }
+*pList = NULL;
+}
+
+void ucscRetroOrthoOutput(struct ucscRetroOrtho *el, FILE *f, char sep, char lastSep) 
+/* Print out ucscRetroOrtho.  Separate fields with sep. Follow last field with lastSep. */
+{
+if (sep == ',') fputc('"',f);
+fprintf(f, "%s", el->name);
+if (sep == ',') fputc('"',f);
+fputc(sep,f);
+if (sep == ',') fputc('"',f);
+fprintf(f, "%s", el->db);
+if (sep == ',') fputc('"',f);
+fputc(sep,f);
+fprintf(f, "%d", el->overlap);
+fputc(lastSep,f);
+}
+
+/* -------------------------------- End autoSql Generated Code -------------------------------- */
+