On Tue, May 26, 2009 at 09:54:15AM -0400, Chris Dagdigian wrote:
> - Once we process the data to get the derived results, the primary data
> just needs to go somewhere cheap
If you only rarely re-read the primary data, I'd think a stack of SATA
drives in a cabinet would probably do the trick. Tw
On Tue, May 26, 2009 at 03:24:26PM -0400, Robert G. Brown wrote:
>
>> The comparison of "fixings" vs. the deli goes a long way.
.
> And even on the smaller scale, the savings add up. That's why we
> parents nag our kids to go into the damn kitchen and fix yourself a
> sandwich instead of expec
On Sat, May 23, 2009 at 12:43:57PM -0300, Bruno Coutinho wrote:
>
>If you are using Gigabit Ethernet with jumbo frames (9000 bytes for
>example):
>A will send 3 packets with 4000 bytes and
>B will send one of 9000 bytes and one of 7000 bytes.
>For the cpu B is better, because w
On Tue, 26 May 2009, Nifty Tom Mitchell wrote:
The comparison of "fixings" vs. the deli goes a long way.
How close in time and space is the deli/ market.
Do you eat the same thing each day.
If there are multiple people do they eat the same, do
they eat left overs.
Cleanup sanitation -- do you ha
On Tue, May 26, 2009 at 12:26:19PM -0400, Robert G. Brown wrote:
> On Tue, 26 May 2009, Chris Dagdigian wrote:
>
> Yeah, well, stupidity is a universal problem, even in the
> government...;-) But this is why CBAs and smart people (working
> together) are so important.
>
_Especially_ in the governm
On May 26, 2009, at 10:20 AM, "Robert G. Brown"
Subject: Re: [Beowulf] Station wagon full of tapes
To: Jeff Layton
Cc: Beowulf Mailing List
Message-ID:
Content-Type: TEXT/PLAIN; charset=US-ASCII; format=flowed
On Tue, 26 May 2009, Jeff Layton wrote:
I haven't seen the cloud ready yet for
On Tue, May 26, 2009 at 12:19:11PM -0400, Joe Landman wrote:
> Robert G. Brown wrote:
>
>> Sure, but why wouldn't it be cheaper for e.g. NSF or NIH to fund an
>> exact clone of the service Amazon plans to offer and provide it for free
>> to its supported research groups (or rather, do bookkeeping b
Hi Dr. Cool Santa
Dr Cool Santa wrote:
@Gus: According to the documentation, Schrodinger software should only
run good on MPICH1, otherwise I'd have preferred MPICH2.
First off, I know nothing about computational chemistry.
Hence, consider my suggestions at your own risk.
Did you check with
Rgb wrote:
>
> Sure, but why wouldn't it be cheaper for e.g. NSF or NIH to
> fund an exact clone of the service Amazon plans to offer and
> provide it for free to its supported research groups (or
> rather, do bookkeeping but it is all internal bookkeeping,
> moving money from one pocket to an
On Tue, 26 May 2009, Chris Dagdigian wrote:
I deal quite often with the "next-gen" DNA sequencing instruments that
produce 1TB/day in TIFF images that are then distilled down to the DNA
basecalls before the short reads are subjected to alignment. Then the
resulting longer sequences are usual
On Tue, 26 May 2009, Chris Dagdigian wrote:
The flip side to your arguments is that I may not want my tax dollars spent
on allowing the NIH to operate peta-scale data repositories. I can't be more
specific than this -- my most recent exposure to a large government life
science directorate re
On May 26, 2009, at 11:16 AM, Robert G. Brown wrote:
Sure, but why wouldn't it be cheaper for e.g. NSF or NIH to fund an
exact clone of the service Amazon plans to offer and provide it for
free
to its supported research groups (or rather, do bookkeeping but it is
all internal bookkeeping, mov
Chris Dagdigian wrote:
> We are only a few
> technology revolutions away from these boxes showing up in your point
> of care primary physician's office (well not really, probably a
> backend service lab that your physician outsources to ...)
Could be, but this (raw) medical data will not b
John Hearns wrote:
There was a discussion recently on cloud computing, and how effective
it would be for HPC.
I made the comment that the time for getting large data sets to/from
the cloud provider would be
a limiting factor. I think Amazon was listening to me:
http://www.theregister.co.uk/2009/
Robert G. Brown wrote:
Sure, but why wouldn't it be cheaper for e.g. NSF or NIH to fund an
exact clone of the service Amazon plans to offer and provide it for free
to its supported research groups (or rather, do bookkeeping but it is
all internal bookkeeping, moving money from one pocket to anot
Chris Dagdigian wrote:
The flip side to your arguments is that I may not want my tax dollars
spent on allowing the NIH to operate peta-scale data repositories. I
can't be more specific than this -- my most recent exposure to a large
government life science directorate revealed that they were
On Tue, 26 May 2009, Gerry Creager wrote:
How can I get sufficient cloud resources for computing... ... that
will handle reasonable weather models with their small message MPI
chatter, and lots of file I/O?
By asking Amazon to equip their cloud nodes with a HPC interconnect or
to have fat no
On Tue, 26 May 2009, Jeff Layton wrote:
I haven't seen the cloud ready yet for anything other than embarrassingly
parallel codes (i.e. since node, small IO requirements). Has anyone seen
differently? (as an example of what might work, CloudBurst seems to be
gaining some traction - doing sequenci
Hate to promote commercial efforts here but this thread has a timely
link to an Amazon AWS event happening in NYC this week. For people in
the area who are interested in grilling the AWS product people and
techies about their offerings this is probably a good forum to do so.
I know from p
Jeff Layton wrote:
I haven't seen the cloud ready yet for anything other than embarrassingly
parallel codes (i.e. since node, small IO requirements). Has anyone seen
differently? (as an example of what might work, CloudBurst seems to be
gaining some traction - doing sequencing in the cloud. The
The flip side to your arguments is that I may not want my tax dollars
spent on allowing the NIH to operate peta-scale data repositories. I
can't be more specific than this -- my most recent exposure to a large
government life science directorate revealed that they were spending
$500K/year
I deal quite often with the "next-gen" DNA sequencing instruments that
produce 1TB/day in TIFF images that are then distilled down to the DNA
basecalls before the short reads are subjected to alignment. Then the
resulting longer sequences are usually aligned again against a
reference geno
Gerry Creager wrote:
There was an interesting brainstorming session at Rocks-A-Palooza a
couple of weeks ago. Someone wants to offer Amazon resources.
Problem remains for me: How can I get sufficient cloud resources for
computing (I'll hammer on dataset transport in a moment) that will
handl
There was an interesting brainstorming session at Rocks-A-Palooza a
couple of weeks ago. Someone wants to offer Amazon resources. Problem
remains for me: How can I get sufficient cloud resources for computing
(I'll hammer on dataset transport in a moment) that will handle
reasonable weather m
The original question was about relatively small messages - only 500 bytes each
You can often get better throughput if you send say two smaller messages rather
than one large one.
This is since the interconnect can generate multiple RDMA requests that can
proceed concurrently.
This old paper fr
There was a discussion recently on cloud computing, and how effective
it would be for HPC.
I made the comment that the time for getting large data sets to/from
the cloud provider would be
a limiting factor. I think Amazon was listening to me:
http://www.theregister.co.uk/2009/05/22/amazon_cloud_dr
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