[Bioclusters] NCBI 2.2.9 compile error on x86-64 Fedora Core 2

Mon, 28 Jun 2004 14:06:52 -0400

This is a multi-part message in MIME format.
--------------080100070608060707050003
Content-Type: text/plain; charset=us-ascii; format=flowed
Content-Transfer-Encoding: 7bit

Hello Alan,
I have noticed that our dual Opteron 1.4 Ghz memory test is
@ 1,008MB/sec vs the Uni 3Ghz P4 @ 2,852 MB/sec and
Dual 2.4 Ghz Xeon systems @ 1,374 MB/sec.

By running BBS in ramdisk, I feel this is showing us the limits of system
memory, O/S and BLAST codes. Virtually no disk IO is observed
during the benchmark and no swap is used.

we use memtest+ ver. 1.2 to benchmark memory
http://www.memtest.org/

I will be running BBS on both the P4 and Xeon soon and will post my results.

One BBS setup change I made was '/bin/blastall' vs '/build/blastall'.
All benchmarks ran error free.

hope this helps
Doug

Alan Kilian wrote:

>  Doug,
>
>    Do you know why your numbers are so different from Joe's
>    numbers posted here? <http://bioinformatics.org/bbs/>
>
>    For some tests, you are significantly faster, for some you are
>    significantly slower.
>
>    I'm just curious about how people explain differences in these 
>    benchmark reports.
>
>    I'm getting ready to try again to run these benchmarks on our 
>    system, so any help you could provide would be great.
>
>    Thanks,
>
>                        -Alan
>
>Doug:
>1,1,1641
>2,1,1647
>2,2,1685
>3,4,3289
>3,1,3296
>3,3,3332
>3,2,3335
>4,1,863
>5,1,1683
>5,2,1690
>6,1,848
>
>Joe:
>1,1,2167
>2,1,1361
>2,2,2747
>3,1,1018
>3,2,2972
>3,4,3180
>3,3,4380
>4,1,391
>5,2,4011
>5,1,4015
>6,1,1988
>
>
>  
>

--------------080100070608060707050003
Content-Type: text/html; charset=us-ascii
Content-Transfer-Encoding: 7bit

<!DOCTYPE html PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN">
<html>
<head>
 <meta http-equiv="Content-Type" content="text/html;charset=ISO-8859-1">
 <title></title>
</head>
<body text="#000000" bgcolor="#ffffff">
<meta http-equiv="Content-Type" content="text/html;charset=ISO-8859-1">
<title></title>
Hello Alan, 
I have noticed that our dual Opteron 1.4 Ghz memory test is 
@ 1,008MB/sec vs the Uni 3Ghz P4 @ 2,852 MB/sec and 
Dual 2.4 Ghz Xeon systems @ 1,374 MB/sec. 
 
By running BBS in ramdisk, I feel this is showing us the limits of
system 
memory, O/S and BLAST codes. Virtually no disk IO is observed 
during the benchmark and no swap is used. 
 
we use memtest+ ver. 1.2 to benchmark memory 
<a class="moz-txt-link-freetext" href="http://www.memtest.org/">http://www.memtest.org/</a> 
 
I will be running BBS on both the P4 and Xeon soon and will post my
results. 
 
One BBS setup change I made was '/bin/blastall' vs '/build/blastall'. 
All benchmarks ran error free. 
 
hope this helps 
Doug 
 
 
 
 
Alan Kilian wrote: 
<blockquote type="cite" cite="mid200406281657.LAA17953@raceme.attbi.com">
 <pre wrap=""> Doug,

    Do you know why your numbers are so different from Joe's
    numbers posted here? <a
 class="moz-txt-link-rfc2396E" href="http://bioinformatics.org/bbs/">&lt;http://bioinformatics.org/bbs/&gt;</a>

    For some tests, you are significantly faster, for some you are
    significantly slower.

    I'm just curious about how people explain differences in these 
    benchmark reports.

    I'm getting ready to try again to run these benchmarks on our 
    system, so any help you could provide would be great.

    Thanks,

                        -Alan

Doug:
1,1,1641
2,1,1647
2,2,1685
3,4,3289
3,1,3296
3,3,3332
3,2,3335
4,1,863
5,1,1683
5,2,1690
6,1,848

Joe:
1,1,2167
2,1,1361
2,2,2747
3,1,1018
3,2,2972
3,4,3180
3,3,4380
4,1,391
5,2,4011
5,1,4015
6,1,1988

  </pre>
</blockquote>
</body>
</html>

--------------080100070608060707050003--