[Bioclusters] requesting help for computational server setup - bonnie output !

[Joseph Landman]

Hi Karthik:

On Thu, 2003-09-18 at 10:56, karthik viswanathan wrote:
> Hi Joe:
> 
> I got a chance to run bonnie when the server was free. the output is
> 
> Version  1.03       ------Sequential Output------ --Sequential Input- --Random-
>                     -Per Chr- --Block-- -Rewrite- -Per Chr- --Block-- --Seeks--
> Machine        Size K/sec %CP K/sec %CP K/sec %CP K/sec %CP K/sec %CP  /sec %CP
> xxxxxxxx-xxxx 7440M  6352  91 27899   7 14508   4  6005  82 38493   5 336.1   0

Your write speed is about 28 MB/s for sequential blocks.  Your read
speed is about 38.5 MB/s for sequential blocks.

Your reads are about 38 MB/s, so you still have some room in your IO
channel.  

[...]

> I am not sure how to interpret the result, but was expecting some values in Read
> instead of ++++
> Could you help me in interpreting this result.
> 
> Thanks for your help
> karthik
> 
> 
> 
> > On Wed, 2003-09-17 at 16:41, karthik viswanathan wrote:
> > > Hi Joe:
> > > 
> > > Thanks for ur reply. 
> > > 
> > > " T Get 3 newhe performance ..." 
> > > this is a typo error, sorry about that. I am surprised how this got appended!
> it
> > > should have been
> > > "The performance is not satisfactory ..."
> > 
> > :)
> > 
> > > The programs the client run mostly are
> > > 
> > > 1. LUCY  (http://www.tigr.org/software/)
> > 
> > Somewhat disk intensive.
> > 
> > > 2. GENESEQER 
> (http://bioinformatics.iastate.edu/bioinformatics2go/gs/help.html)
> > 
> > More CPU intensive.
> > 
> > > I had ran hdparm
> > > 
> > > # /sbin/hdparm -tT /dev/sda2
> > >  
> > >  /dev/sda2: 
> > > Timing buffer-cache reads: 128 MB in 0.25  seconds =512.00 MB/sec 
> > > Timing buffered disk reads: 64 MB in 1.75 seconds = 36.57 MB/sec
> > 
> > Egad!  Thats low....
> > 
> > [root@squash landman]# hdparm -tT /dev/md0
> >  
> > /dev/md0:
> >  Timing buffer-cache reads:   128 MB in  0.30 seconds =426.67 MB/sec
> >  Timing buffered disk reads:  64 MB in  0.68 seconds = 94.12 MB/sec
> > 
> > These are two IDE drives in a software RAID0.
> > 
> > See if you can adjust the stripe unit on the hardware raid.  It would
> > require rebuilding the raided file system though.  Also, look at using
> > XFS rather than ext3.
> > 
> > One thing to do, while others are running, is to use vmstat.  Run
> > 
> > 	vmstat 1
> > 
> > in a window, and watch the state of the machine.  Read the man page for
> > details on the fields.  
> > 
> > Joe
> > -- 
> > Joseph Landman, Ph.D
> > Scalable Informatics LLC,
> > email: landman@scalableinformatics.com
> > web  : http://scalableinformatics.com
> > phone: +1 734 612 4615
> > 
> > _______________________________________________
> > Bioclusters maillist  -  Bioclusters@bioinformatics.org
> > https://bioinformatics.org/mailman/listinfo/bioclusters
> > 
> 
> 
> 
> 
> 
> 
> 
> _______________________________________________
> Bioclusters maillist  -  Bioclusters@bioinformatics.org
> https://bioinformatics.org/mailman/listinfo/bioclusters
-- 
Joseph Landman, Ph.D
Scalable Informatics LLC
email: landman@scalableinformatics.com
  web: http://scalableinformatics.com
phone: +1 734 612 4615