This file is indexed.

/usr/lib/mysql-testsuite/include/gis_keys.inc is in percona-server-test-5.6 5.6.22-rel71.0-0ubuntu4.

This file is owned by root:root, with mode 0o644.

The actual contents of the file can be viewed below.

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--source include/have_geometry.inc

#
# Spatial objects with keys
#

#
# Bug #30825: Problems when putting a non-spatial index on a GIS column
#

CREATE TABLE t1 (p POINT);
CREATE TABLE t2 (p POINT, INDEX(p));
INSERT INTO t1 VALUES (POINTFROMTEXT('POINT(1 2)'));
INSERT INTO t2 VALUES (POINTFROMTEXT('POINT(1 2)'));

# no index, returns 1 as expected
SELECT COUNT(*) FROM t1 WHERE p=POINTFROMTEXT('POINT(1 2)');

# with index, returns 1 as expected
# EXPLAIN shows that the index is not used though
# due to the "most rows covered anyway, so a scan is more effective" rule
EXPLAIN 
SELECT COUNT(*) FROM t2 WHERE p=POINTFROMTEXT('POINT(1 2)');
SELECT COUNT(*) FROM t2 WHERE p=POINTFROMTEXT('POINT(1 2)');

# adding another row to the table so that
# the "most rows covered" rule doesn't kick in anymore
# now EXPLAIN shows the index used on the table
# and we're getting the wrong result again
INSERT INTO t1 VALUES (POINTFROMTEXT('POINT(1 2)'));
INSERT INTO t2 VALUES (POINTFROMTEXT('POINT(1 2)'));
EXPLAIN 
SELECT COUNT(*) FROM t1 WHERE p=POINTFROMTEXT('POINT(1 2)');
SELECT COUNT(*) FROM t1 WHERE p=POINTFROMTEXT('POINT(1 2)');

EXPLAIN 
SELECT COUNT(*) FROM t2 WHERE p=POINTFROMTEXT('POINT(1 2)');
SELECT COUNT(*) FROM t2 WHERE p=POINTFROMTEXT('POINT(1 2)');

EXPLAIN 
SELECT COUNT(*) FROM t2 IGNORE INDEX(p) WHERE p=POINTFROMTEXT('POINT(1 2)');
SELECT COUNT(*) FROM t2 IGNORE INDEX(p) WHERE p=POINTFROMTEXT('POINT(1 2)');

DROP TABLE t1, t2;

--echo End of 5.0 tests


--echo #
--echo # Test for bug #58650 "Failing assertion: primary_key_no == -1 ||
--echo #                      primary_key_no == 0".
--echo #
--disable_warnings
drop table if exists t1;
--enable_warnings
--echo # The minimal test case.
create table t1 (a int not null, b linestring not null, unique key b (b(12)), unique key a (a));
drop table t1;
--echo # The original test case.
create table t1 (a int not null, b linestring not null, unique key b (b(12)));
create unique index a on t1(a);
drop table t1;