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MySql Using 100% CPU
Posted by: Balls Deep
Date: October 09, 2011 02:31PM

Hello,

We had compiled mysql 5.5.9 on our centos 5 64bit machine. Our DB size is around 56GB and is almost totally based on InnoDB. After we started up the server we automatically see the CPU raise to 100% when the DB is idle (No queries are being ran). After digging around we found what we believe is the reason for the high CPU usage and that is the following variables from the server's status:

Innodb_buffer_pool_read_requests Avg per sec 304,941.9
Innodb_data_read Avg per sec 63,451.7
Qcache_free_memory Avg per sec 29,715.8

We have no idea why the DB is so active, please advice.

Show Variables:

"Variable_name" "Value"
"auto_increment_increment" "1"
"auto_increment_offset" "1"
"autocommit" "ON"
"automatic_sp_privileges" "ON"
"back_log" "50"
"basedir" "/usr/local/mysql"
"big_tables" "OFF"
"binlog_cache_size" "32768"
"binlog_direct_non_transactional_updates" "OFF"
"binlog_format" "MIXED"
"binlog_stmt_cache_size" "32768"
"bulk_insert_buffer_size" "8388608"
"character_set_client" "utf8"
"character_set_connection" "utf8"
"character_set_database" "utf8"
"character_set_filesystem" "binary"
"character_set_results" "utf8"
"character_set_server" "latin1"
"character_set_system" "utf8"
"character_sets_dir" "/usr/local/mysql/share/charsets/"
"collation_connection" "utf8_general_ci"
"collation_database" "utf8_general_ci"
"collation_server" "latin1_swedish_ci"
"completion_type" "NO_CHAIN"
"concurrent_insert" "AUTO"
"connect_timeout" "10"
"datadir" "/usr/local/mysql/data/"
"date_format" "%Y-%m-%d"
"datetime_format" "%Y-%m-%d %H:%i:%s"
"default_storage_engine" "InnoDB"
"default_week_format" "0"
"delay_key_write" "ON"
"delayed_insert_limit" "100"
"delayed_insert_timeout" "300"
"delayed_queue_size" "1000"
"div_precision_increment" "4"
"engine_condition_pushdown" "ON"
"error_count" "0"
"event_scheduler" "OFF"
"expire_logs_days" "0"
"external_user" ""
"flush" "OFF"
"flush_time" "0"
"foreign_key_checks" "ON"
"ft_boolean_syntax" "+ -><()~*:""""&|"
"ft_max_word_len" "84"
"ft_min_word_len" "4"
"ft_query_expansion_limit" "20"
"ft_stopword_file" "(built-in)"
"general_log" "OFF"
"general_log_file" "/usr/local/mysql/data/DBLinux.log"
"group_concat_max_len" "1024"
"have_compress" "YES"
"have_crypt" "YES"
"have_csv" "YES"
"have_dynamic_loading" "YES"
"have_geometry" "YES"
"have_innodb" "YES"
"have_ndbcluster" "NO"
"have_openssl" "NO"
"have_partitioning" "YES"
"have_profiling" "YES"
"have_query_cache" "YES"
"have_rtree_keys" "YES"
"have_ssl" "NO"
"have_symlink" "YES"
"hostname" "DBLinux"
"identity" "0"
"ignore_builtin_innodb" "OFF"
"init_connect" ""
"init_file" ""
"init_slave" ""
"innodb_adaptive_flushing" "ON"
"innodb_adaptive_hash_index" "ON"
"innodb_additional_mem_pool_size" "20971520"
"innodb_autoextend_increment" "8"
"innodb_autoinc_lock_mode" "1"
"innodb_buffer_pool_instances" "1"
"innodb_buffer_pool_size" "792723456"
"innodb_change_buffering" "all"
"innodb_checksums" "ON"
"innodb_commit_concurrency" "0"
"innodb_concurrency_tickets" "500"
"innodb_data_file_path" "ibdata1:10M:autoextend"
"innodb_data_home_dir" "/usr/local/mysql/data"
"innodb_doublewrite" "ON"
"innodb_fast_shutdown" "1"
"innodb_file_format" "Antelope"
"innodb_file_format_check" "ON"
"innodb_file_format_max" "Antelope"
"innodb_file_per_table" "OFF"
"innodb_flush_log_at_trx_commit" "1"
"innodb_flush_method" ""
"innodb_force_recovery" "0"
"innodb_io_capacity" "200"
"innodb_lock_wait_timeout" "50"
"innodb_locks_unsafe_for_binlog" "OFF"
"innodb_log_buffer_size" "8388608"
"innodb_log_file_size" "188743680"
"innodb_log_files_in_group" "2"
"innodb_log_group_home_dir" "/usr/local/mysql/data"
"innodb_max_dirty_pages_pct" "75"
"innodb_max_purge_lag" "0"
"innodb_mirrored_log_groups" "1"
"innodb_old_blocks_pct" "37"
"innodb_old_blocks_time" "0"
"innodb_open_files" "300"
"innodb_purge_batch_size" "20"
"innodb_purge_threads" "0"
"innodb_read_ahead_threshold" "56"
"innodb_read_io_threads" "4"
"innodb_replication_delay" "0"
"innodb_rollback_on_timeout" "OFF"
"innodb_spin_wait_delay" "6"
"innodb_stats_on_metadata" "ON"
"innodb_stats_sample_pages" "8"
"innodb_strict_mode" "OFF"
"innodb_support_xa" "ON"
"innodb_sync_spin_loops" "30"
"innodb_table_locks" "ON"
"innodb_thread_concurrency" "20"
"innodb_thread_sleep_delay" "10000"
"innodb_use_native_aio" "OFF"
"innodb_use_sys_malloc" "ON"
"innodb_version" "1.1.5"
"innodb_write_io_threads" "4"
"insert_id" "0"
"interactive_timeout" "28800"
"join_buffer_size" "131072"
"keep_files_on_create" "OFF"
"key_buffer_size" "8388608"
"key_cache_age_threshold" "300"
"key_cache_block_size" "1024"
"key_cache_division_limit" "100"
"large_files_support" "ON"
"large_page_size" "0"
"large_pages" "OFF"
"last_insert_id" "0"
"lc_messages" "en_US"
"lc_messages_dir" "/usr/local/mysql/share/"
"lc_time_names" "en_US"
"license" "GPL"
"local_infile" "ON"
"lock_wait_timeout" "31536000"
"locked_in_memory" "OFF"
"log" "OFF"
"log_bin" "ON"
"log_bin_trust_function_creators" "OFF"
"log_error" "/usr/local/mysql/data/DBLinux.err"
"log_output" "FILE"
"log_queries_not_using_indexes" "OFF"
"log_slave_updates" "OFF"
"log_slow_queries" "OFF"
"log_warnings" "1"
"long_query_time" "10.000000"
"low_priority_updates" "OFF"
"lower_case_file_system" "OFF"
"lower_case_table_names" "0"
"max_allowed_packet" "1048576"
"max_binlog_cache_size" "18446744073709547520"
"max_binlog_size" "1073741824"
"max_binlog_stmt_cache_size" "18446744073709547520"
"max_connect_errors" "10"
"max_connections" "151"
"max_delayed_threads" "20"
"max_error_count" "64"
"max_heap_table_size" "16777216"
"max_insert_delayed_threads" "20"
"max_join_size" "18446744073709551615"
"max_length_for_sort_data" "1024"
"max_prepared_stmt_count" "16382"
"max_relay_log_size" "0"
"max_seeks_for_key" "18446744073709551615"
"max_sort_length" "1024"
"max_sp_recursion_depth" "0"
"max_tmp_tables" "32"
"max_user_connections" "0"
"max_write_lock_count" "18446744073709551615"
"min_examined_row_limit" "0"
"multi_range_count" "256"
"myisam_data_pointer_size" "6"
"myisam_max_sort_file_size" "9223372036853727232"
"myisam_mmap_size" "18446744073709551615"
"myisam_recover_options" "OFF"
"myisam_repair_threads" "1"
"myisam_sort_buffer_size" "67108864"
"myisam_stats_method" "nulls_unequal"
"myisam_use_mmap" "OFF"
"net_buffer_length" "16384"
"net_read_timeout" "30"
"net_retry_count" "10"
"net_write_timeout" "60"
"new" "OFF"
"old" "OFF"
"old_alter_table" "OFF"
"old_passwords" "OFF"
"open_files_limit" "1024"
"optimizer_prune_level" "1"
"optimizer_search_depth" "62"
"optimizer_switch" "index_merge=on,index_merge_union=on,index_merge_sort_union=on,index_merge_intersection=on,engine_condition_pushdown=on"
"performance_schema" "OFF"
"performance_schema_events_waits_history_long_size" "10000"
"performance_schema_events_waits_history_size" "10"
"performance_schema_max_cond_classes" "80"
"performance_schema_max_cond_instances" "1000"
"performance_schema_max_file_classes" "50"
"performance_schema_max_file_handles" "32768"
"performance_schema_max_file_instances" "10000"
"performance_schema_max_mutex_classes" "200"
"performance_schema_max_mutex_instances" "1000000"
"performance_schema_max_rwlock_classes" "30"
"performance_schema_max_rwlock_instances" "1000000"
"performance_schema_max_table_handles" "100000"
"performance_schema_max_table_instances" "50000"
"performance_schema_max_thread_classes" "50"
"performance_schema_max_thread_instances" "1000"
"pid_file" "/usr/local/mysql/data/DBLinux.pid"
"plugin_dir" "/usr/local/mysql/lib/plugin"
"port" "3306"
"preload_buffer_size" "32768"
"profiling" "OFF"
"profiling_history_size" "15"
"protocol_version" "10"
"proxy_user" ""
"pseudo_thread_id" "1"
"query_alloc_block_size" "8192"
"query_cache_limit" "1048576"
"query_cache_min_res_unit" "4096"
"query_cache_size" "16777216"
"query_cache_type" "ON"
"query_cache_wlock_invalidate" "OFF"
"query_prealloc_size" "8192"
"rand_seed1" "0"
"rand_seed2" "0"
"range_alloc_block_size" "4096"
"read_buffer_size" "1048576"
"read_only" "OFF"
"read_rnd_buffer_size" "4194304"
"relay_log" ""
"relay_log_index" ""
"relay_log_info_file" "relay-log.info"
"relay_log_purge" "ON"
"relay_log_recovery" "OFF"
"relay_log_space_limit" "0"
"report_host" ""
"report_password" ""
"report_port" "3306"
"report_user" ""
"rpl_recovery_rank" "0"
"secure_auth" "OFF"
"secure_file_priv" ""
"server_id" "1"
"skip_external_locking" "ON"
"skip_name_resolve" "OFF"
"skip_networking" "OFF"
"skip_show_database" "OFF"
"slave_compressed_protocol" "OFF"
"slave_exec_mode" "STRICT"
"slave_load_tmpdir" "/tmp"
"slave_net_timeout" "3600"
"slave_skip_errors" "OFF"
"slave_transaction_retries" "10"
"slave_type_conversions" ""
"slow_launch_time" "2"
"slow_query_log" "OFF"
"slow_query_log_file" "/usr/local/mysql/data/DBLinux-slow.log"
"socket" "/tmp/mysql.sock"
"sort_buffer_size" "1048576"
"sql_auto_is_null" "OFF"
"sql_big_selects" "ON"
"sql_big_tables" "OFF"
"sql_buffer_result" "OFF"
"sql_log_bin" "ON"
"sql_log_off" "OFF"
"sql_low_priority_updates" "OFF"
"sql_max_join_size" "18446744073709551615"
"sql_mode" ""
"sql_notes" "ON"
"sql_quote_show_create" "ON"
"sql_safe_updates" "OFF"
"sql_select_limit" "18446744073709551615"
"sql_slave_skip_counter" "0"
"sql_warnings" "OFF"
"ssl_ca" ""
"ssl_capath" ""
"ssl_cert" ""
"ssl_cipher" ""
"ssl_key" ""
"storage_engine" "InnoDB"
"sync_binlog" "0"
"sync_frm" "ON"
"sync_master_info" "0"
"sync_relay_log" "0"
"sync_relay_log_info" "0"
"system_time_zone" "EDT"
"table_definition_cache" "400"
"table_open_cache" "256"
"thread_cache_size" "20"
"thread_concurrency" "4"
"thread_handling" "one-thread-per-connection"
"thread_stack" "262144"
"time_format" "%H:%i:%s"
"time_zone" "SYSTEM"
"timed_mutexes" "OFF"
"timestamp" "1318192143"
"tmp_table_size" "16777216"
"tmpdir" "/tmp"
"transaction_alloc_block_size" "8192"
"transaction_prealloc_size" "4096"
"tx_isolation" "REPEATABLE-READ"
"unique_checks" "ON"
"updatable_views_with_limit" "YES"
"version" "5.5.9-log"
"version_comment" "Source distribution"
"version_compile_machine" "x86_64"
"version_compile_os" "Linux"
"wait_timeout" "28800"
"warning_count" "0"

Thanks.

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MySql Using 100% CPU
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October 09, 2011 02:31PM
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