You do not have InnoDB enabled

After upgrading from MySQL 5.5 to 5.6 I'm seeing the above warning in phpmyadmin. It's also stating the query cache is off. Looking at the details, it further states:

The query cache is not enabled.

Test
value == 0 || query_cache_type == 'OFF' || query_cache_type == '0'

You do not have InnoDB enabled.
value != "YES"

 

This is the contents of my.conf

[mysqldump]
max_allowed_packet=32M
quick

[mysql]
no-auto-rehash

[mysqld]
default_storage_engine=InnoDB
query_cache_size=48M
local-infile=0
collation_server=utf8_unicode_ci
query_cache_limit=1M
max_connect_errors=1000000
character_set_server=utf8
read_rnd_buffer_size=1M
table_open_cache=4096
thread_cache_size=50
tmp_table_size=48M
sort_buffer_size=1M
max_connections=150
max_allowed_packet=268435456
max_heap_table_size=48M
interactive_timeout=300
join_buffer_size=1M
open_files_limit=65535
table_definition_cache=2048
key_buffer_size=2M
read_buffer_size=256K
wait_timeout=30
innodb_buffer_pool_size=208M
innodb_log_buffer_size=4M
innodb_flush_method=O_DIRECT
innodb_file_per_table=1
innodb_flush_log_at_trx_commit=1
innodb_fast_shutdown=0
innodb_log_file_size=64M

[isamchk]
read_buffer=2M
key_buffer_size=96M
write_buffer=2M
sort_buffer_size=64M

[myisamchk]
read_buffer=2M
key_buffer_size=96M
write_buffer=2M
sort_buffer_size=64M

 

Okay, this is strange... Immediately after I upgraded, I noticed phpmyadmin was still reporting MySQL as version 5.5. (I tried clearing the browser cache.) A couple of hours later, it's now saying 5.6.21. I'm looking in Status>Advisor and the message about Innodb has disappeared.

I also see in the MySQL documentation that after 5.6.8 the default is off for query cache and it needs to be explicitly turned on. I'm still reading through documentation to see if it's still needed. If anyone has an insight, I'd appreciate it.

I also see in the MySQL documentation on query_cache_size:

The permissible values are multiples of 1024; other values are rounded down to the nearest multiple. Note that query_cache_size bytes of memory are allocated even if query_cache_type is set to 0. See Section 8.9.3.3, “Query Cache Configuration”, for more information.

Does that mean I can save 48M of memory by taking that line out of my.conf?