Apply patch from MySQL:

 ChangeSet@1.2353, 2006-12-19 16:57:51-07:00, tsmith@siva.hindu.god +13 -0
   Added innodb_rollback_on_timeout option to restore the 4.1 
   InnoDB timeout behavior (Bug #24200)

handler/ha_innodb.cc

@@ -177,6 +177,7 @@ my_bool innobase_use_large_pages		= FALSE;
 my_bool	innobase_use_native_aio			= FALSE;
 my_bool	innobase_file_per_table			= FALSE;
 my_bool innobase_locks_unsafe_for_binlog	= FALSE;
+my_bool innobase_rollback_on_timeout		= FALSE;
 my_bool innobase_create_status_file		= FALSE;
 
 static char *internal_innobase_data_file_path	= NULL;
@@ -469,6 +470,10 @@ convert_error_code_to_mysql(
 		latest SQL statement in a lock wait timeout. Previously, we
 		rolled back the whole transaction. */
 
+		if (thd && row_rollback_on_timeout) {
+			ha_rollback(thd);
+		}
+
 		return(HA_ERR_LOCK_WAIT_TIMEOUT);
 
 	} else if (error == (int) DB_NO_REFERENCED_ROW) {
@@ -1550,6 +1555,8 @@ innobase_init(void *p)
 	os_use_large_pages = (ibool) innobase_use_large_pages;
 	os_large_page_size = (ulint) innobase_large_page_size;
 
+	row_rollback_on_timeout = (ibool) innobase_rollback_on_timeout;
+
 	srv_file_per_table = (ibool) innobase_file_per_table;
 	srv_locks_unsafe_for_binlog = (ibool) innobase_locks_unsafe_for_binlog;
 

handler/ha_innodb.h

@@ -223,6 +223,7 @@ extern my_bool innobase_log_archive,
 	innobase_use_large_pages,
 	innobase_use_native_aio,
 	innobase_file_per_table, innobase_locks_unsafe_for_binlog,
+	innobase_rollback_on_timeout,
 	innobase_create_status_file;
 extern "C" {
 extern ulong srv_max_buf_pool_modified_pct;

include/row0mysql.h

@@ -19,6 +19,8 @@ Created 9/17/2000 Heikki Tuuri
 #include "btr0pcur.h"
 #include "trx0types.h"
 
+extern ibool row_rollback_on_timeout;
+
 typedef struct row_prebuilt_struct row_prebuilt_t;
 
 /***********************************************************************

row/row0mysql.c

@@ -35,6 +35,9 @@ Created 9/17/2000 Heikki Tuuri
 /* A dummy variable used to fool the compiler */
 ibool	row_mysql_identically_false	= FALSE;
 
+/* Provide optional 4.x backwards compatibility for 5.0 and above */
+ibool	row_rollback_on_timeout	= FALSE;
+
 /* List of tables we should drop in background. ALTER TABLE in MySQL requires
 that the table handler can drop the table in background when there are no
 queries to it any more. Protected by the kernel mutex. */
@@ -496,7 +499,9 @@ row_mysql_handle_errors(
 		return(TRUE);
 
 	} else if (err == DB_DEADLOCK
-		   || err == DB_LOCK_TABLE_FULL) {
+		   || err == DB_LOCK_TABLE_FULL
+		   || (err == DB_LOCK_WAIT_TIMEOUT
+		       && row_rollback_on_timeout)) {
 		/* Roll back the whole transaction; this resolution was added
 		to version 3.23.43 */
 
@@ -504,6 +509,10 @@ row_mysql_handle_errors(
 
 	} else if (err == DB_OUT_OF_FILE_SPACE
 		   || err == DB_LOCK_WAIT_TIMEOUT) {
+
+		ut_ad(!(err == DB_LOCK_WAIT_TIMEOUT
+		        && row_rollback_on_timeout));
+
 		if (savept) {
 			/* Roll back the latest, possibly incomplete
 			insertion or update */