i use MyISAM storage,the MYI file is more than 500Gb. most of the sql is
select with many 'and','or','order by',for example:
SELECT
fref,fstart,fstop,fsource,fmethod,fscore,fstrand,fphase,gclass,gname,ftarget_start,ftarget_stop,fdata.fid,fdata.gid
FROM fdata,ftype,fgroup
WHERE fgroup.gid = fdata.gid
AND ftype.ftypeid = fdata.ftypeid
AND fdata.fref='chr18'
AND (fbin='10000000000'
OR fbin between '1000000000' and '1000000000'
OR fbin between '99999999.9999999' and '100000000'
OR fbin between '10000000.0000049' and '10000000.0000051'
OR fbin between '1000000.0000549' and '1000000.0000551'
OR fbin between '100000.0005529' and '100000.0005531'
OR fbin between '10000.0055379' and '10000.0055381'
OR fbin between '1000.0553839' and '1000.0553841')
AND fdata.fstop>='55384910' AND fdata.fstart<='55384989'
AND ((fmethod = 'genotype' AND fsource = 'SoapSNP') OR (fmethod =
'gt_novel' AND fsource = 'SoapSNP') OR (fmethod = 'SNP' AND fsource =
'MutaGeneSys_06JUNE07') OR (fmethod = 'snp' AND fsource = 'HapMap_gt') OR
(fmethod = 'similarity') OR (fmethod = 'HSP') OR (fmethod = 'match') OR
(fmethod = 'CDS' AND fsource = 'UCSC_1') OR (fmethod = '5\'-UTR' AND fsource
= 'UCSC_1') OR (fmethod = '3\'-UTR' AND fsource = 'UCSC_1') OR (fmethod =
'transcription_start_site' AND fsource = 'UCSC_1') OR (fmethod =
'polyA_site' AND fsource = 'UCSC_1') OR (fmethod = 'UTR' AND fsource =
'UCSC_1') OR (fmethod = 'five_prime_untranslated_region' AND fsource =
'UCSC_1') OR (fmethod = 'three_prime_untranslated_region' AND fsource =
'UCSC_1') OR (fmethod = 'five_prime_UTR' AND fsource = 'UCSC_1') OR (fmethod
= 'three_prime_UTR' AND fsource = 'UCSC_1') OR (fmethod = 'exon' AND fsource
= 'UCSC_1') OR (fmethod = 'mRNA' AND fsource = 'UCSC_1'))
ORDER BY fgroup.gname;
there is a longblob column in the table, but even i do not select this blob
column, the i/o is still higher.
i have 16G memery in total, the oracle database take 1/4 of them, i try to
increasing the key_buffer_size to 2048M and tmp_table_size to 1024M,but the
machine crashed out of memery in one day,the mysqld takes over 18G memery!
i use show profiles find that 'sending data' and 'copying to tmp table'
takes lots of time.
On Tue, Dec 15, 2009 at 5:36 PM, John Daisley <mg_s...@hotmail.com> wrote:
> What kind of queries are being run and what type of data is stored?
>
> There are a number of factors which causes MySQL to use on disk temporary
> tables instead of in memory tables. (If there a BLOB or TEXT columns in the
> table for example).
>
> As a starting point you could (if you have the memory in your box) try
> increasing the values for tmp_table_size and max_heap_size, these control
> how large an in-memory temp table can grow before it is converted to an on
> disk temp table.
>
> Regards
> John
>
> ===================
>
> John Daisley
>
> MySQL 5.0 Certified Database Administrator (CMDBA)
> MySQL 5.0 Certified Developer
> Cognos BI Developer
>
> Telephone: +44(0)1283 537111
> Mobile: +44(0)7812 451238
> Email: john.dais...@butterflysystems.co.uk
>
> ===================
>
> Sent via HP IPAQ mobile device
>
> -----Original Message-----
> From: TianJing <jingtian.seu...@gmail.com>
> Sent: 15 December 2009 03:08
> To: mysql@lists.mysql.com
> Subject: mysql server optimization
>
> Dear all,
>
> i am nowing having a problem with the mysql server optimization, i have 20
> database on a server,each database is about 80Gb,the sql seems very
> slow,almost > 5s.and the server i/o is so high,when i check the
> processlist,the 'copying to tmp table' state takes a long time.
>
> i have already use index,but the sql use lots of 'and','or','order by',
> and
> for some reason i can not optimization the sql,i hope to do some
> optimization on mysql server to mitigate this phenomenon,could any one
> give
> me some suggestion?
>
> thanks.
>
> my server is linux,8CPU and 4G memery,the my.cnf is:
>
> [mysqld]
> port = 3306
> skip-locking
> skip-name-resolve
> key_buffer_size = 16M
> max_allowed_packet = 1M
> table_open_cache = 64
> sort_buffer_size = 512M
> net_buffer_length = 8K
> read_buffer_size = 512K
> read_rnd_buffer_size = 512M
> myisam_sort_buffer_size = 8M
> table_cache = 1024
> log-bin=mysql-bin
> binlog_format=mixed
>
>
> --
> Tianjing
>
>
--
Tianjing
Tel:0755-2527-3851
MSN:tianjing...@hotmail.com <msn%3atianjing...@hotmail.com>
