[MITgcm-support] MITgcm-support Digest, Vol 129, Issue 22

tanya sahu sahu_tanya at yahoo.in
Wed Mar 12 21:16:05 EDT 2014 

Thanks Patrick, Gael and Samar for your replies.

First of all, let me clear that I'd like to run the forward only model. To me, Cartesian grids are more easy to handle with (e.g. plotting, processing etc.), rather than CS or LLC (I don't know anything particularly about this).

I understand that the global1x1_tot example is a very old one. However I need the input files (bathymtery and initial T,S) to start and learn MITgcm. Afterwards, I can switch over to newer configuration.

Samar, kindly share the mentioned input files and let me know if you did any modification to the existing "data" files.

Tanya





On Thursday, 13 March 2014 3:12 AM, "mitgcm-support-request at mitgcm.org" <mitgcm-support-request at mitgcm.org> wrote:
 
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Today's Topics:

   1. Input files for global1x1_tot (tanya sahu)
   2. Re: question about TIMER stats breakdown (Martin Losch)
   3. Re: Input files for global1x1_tot (Patrick Heimbach)
   4. Re: Input files for global1x1_tot (gael forget)


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Message: 1
Date: Thu, 13 Mar 2014 00:37:50 +0800 (SGT)
From: tanya sahu <sahu_tanya at yahoo.in>
To: "mitgcm-support at mitgcm.org" <mitgcm-support at mitgcm.org>
Subject: [MITgcm-support] Input files for global1x1_tot
Message-ID:
    <1394642270.60004.YahooMailNeo at web190003.mail.sg3.yahoo.com>
Content-Type: text/plain; charset="utf-8"

Dear All,
I am trying to run MITGCM for global oceans in 1degx1deg 
configuration. I have seen the directory 
"MITgcm_contrib/verification_other/global1x1_tot". 

But the input files 
(bathy_fl.bin, wghc_ptmp_r4, wghc_salt_r4) are missing. Can somebody 
please help me in obtaining these files?

Tanya
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Message: 2
Date: Wed, 12 Mar 2014 18:12:16 +0100
From: Martin Losch <Martin.Losch at awi.de>
To: MITgcm Support <mitgcm-support at mitgcm.org>
Subject: Re: [MITgcm-support] question about TIMER stats breakdown
Message-ID: <D2FA05CC-D48B-406E-B0B7-964AF110E1B0 at awi.de>
Content-Type: text/plain; charset="windows-1252"

Hi Dan,

Constantinos once answered a similar question here:
<http://mitgcm.org/pipermail/mitgcm-support/2009-July/006141.html>

There?s a little more to find with a google search like this: 
site:mitgcm.org/pipermail system time
but I?ll let you browse the results yourself.

Martin


On Mar 11, 2014, at 11:22 PM, Daniel Goldberg <dngoldberg at gmail.com> wrote:

> Hi All
> 
> Apologies if this is made clear in the documentation.
> 
> I am wondering about the system time/user time breakdown of the TIMER stats. Might it vary from machine to machine what is considered "system time" or is it pretty standard? My understanding is that system time refers to time spent in kernel code rather than user code, but I'm wondering if that's generalized e.g. to external libraries, such as PETSc, or if my long system times are due to slow MPI exchanges (in the particular S/R I am looking at there are no file reads or writes, save writing to STDOUT).
> 
> Thanks very much
> Dan
> 
> -- 
> 
> Daniel Goldberg, PhD
> Lecturer in Glaciology
> School of Geosciences, University of Edinburgh
> Geography Building, Drummond Street, Edinburgh EH8 9XP
> 
> 
> em: Dan.Goldberg at ed.ac.uk
> web: http://ocean.mit.edu/~dgoldberg
> _______________________________________________
> MITgcm-support mailing list
> MITgcm-support at mitgcm.org
> http://mitgcm.org/mailman/listinfo/mitgcm-support




------------------------------

Message: 3
Date: Wed, 12 Mar 2014 16:23:46 -0400
From: Patrick Heimbach <heimbach at MIT.EDU>
To: mitgcm-support at mitgcm.org
Subject: Re: [MITgcm-support] Input files for global1x1_tot
Message-ID: <A43EFFC7-413F-42F2-A5E2-8C6407289A53 at mit.edu>
Content-Type: text/plain; charset="us-ascii"

Tanya,

the server on which we used to have them has been down for a while. We'll work to put them back up.

However, this is by now a fairly old setup. I urge you to consider a newer configuration to which we've transitioned, see the February 2014 announcement at
http://www.ecco-group.org
This is a truly global roughly 1deg setup that includes the Arctic, telescoped meridionally to 1/3deg around the equator, and doubled vertical resolution.

So far the link only points to model output. We will shortly update this information to provide the full model config. along with the input fields.

-Patrick



On Mar 12, 2014, at 12:37 PM, tanya sahu <sahu_tanya at yahoo.in> wrote:

> Dear All,
> I am trying to run MITGCM for global oceans in 1degx1deg configuration. I have seen the directory "MITgcm_contrib/verification_other/global1x1_tot". 
> But the input files (bathy_fl.bin, wghc_ptmp_r4, wghc_salt_r4) are missing. Can somebody please help me in obtaining these files?
> 
> Tanya
> _______________________________________________
> MITgcm-support mailing list
> MITgcm-support at mitgcm.org
> http://mitgcm.org/mailman/listinfo/mitgcm-support


---
Patrick Heimbach | heimbach at mit.edu | http://www.mit.edu/~heimbach
MIT | EAPS 54-1420 | 77 Massachusetts Ave | Cambridge MA 02139 USA
FON +1-617-253-5259 | FAX +1-617-253-4464 | SKYPE patrick.heimbach

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Message: 4
Date: Wed, 12 Mar 2014 16:52:45 -0400
From: gael forget <gforget at MIT.EDU>
To: mitgcm-support at mitgcm.org
Subject: Re: [MITgcm-support] Input files for global1x1_tot
Message-ID: <1F9FD115-65DC-469D-934E-8F20C2C5CEE7 at mit.edu>
Content-Type: text/plain; charset="windows-1252"

Tanya,

Patrick is absolutely right with regard to the obsolete global1x1_tot.

A couple precisions about the up to date stuff though. Patrick was referring 
to the optimized solution, namely the ECCO v4 state estimate fields. These 
are indeed available via http://www.ecco-group.org and can be used for 
analysis of the 1992-2011 ocean state, for model initialization, etc.

From the address listed by Patrick, by following the link under ?in the news", you get to
http://mit.ecco-group.org/opendap/ecco_for_las/version_4/release1/contents.html
This directory contains a README and a matlab script called 
getting_started.m that you may also want to have a look at.

The model setup itself has been released last year @
http://mitgcm.org/viewvc/MITgcm/MITgcm_contrib/gael/verification/
There is a README and a setup script in that directory.

It has been used by several groups at this point either
for simple forward runs (what you likely have in mind) or 
in the context of state estimation (requires the adjoint model).

As you will find out the LLC grid is more elaborate than that used in 
global1x1_tot that was now truly global (it did not include the Arctic).
Like for MITgcm itself, there is a bit of a learning curve (starting with the 
READMEs should help) but most people seem to get used to it rather easily.

Gael



On Mar 12, 2014, at 4:23 PM, Patrick Heimbach <heimbach at MIT.EDU> wrote:

> Tanya,
> 
> the server on which we used to have them has been down for a while. We'll work to put them back up.
> 
> However, this is by now a fairly old setup. I urge you to consider a newer configuration to which we've transitioned, see the February 2014 announcement at
> http://www.ecco-group.org
> This is a truly global roughly 1deg setup that includes the Arctic, telescoped meridionally to 1/3deg around the equator, and doubled vertical resolution.
> 
> So far the link only points to model output. We will shortly update this information to provide the full model config. along with the input fields.
> 
> -Patrick
> 
> 
> 
> On Mar 12, 2014, at 12:37 PM, tanya sahu <sahu_tanya at yahoo.in> wrote:
> 
>> Dear All,
>> I am trying to run MITGCM for global oceans in 1degx1deg configuration. I have seen the directory "MITgcm_contrib/verification_other/global1x1_tot". 
>> But the input files (bathy_fl.bin, wghc_ptmp_r4, wghc_salt_r4) are missing. Can somebody please help me in obtaining these files?
>> 
>> Tanya
>> _______________________________________________
>> MITgcm-support mailing list
>> MITgcm-support at mitgcm.org
>> http://mitgcm.org/mailman/listinfo/mitgcm-support
> 
> 
> ---
> Patrick Heimbach | heimbach at mit.edu | http://www.mit.edu/~heimbach
> MIT | EAPS 54-1420 | 77 Massachusetts Ave | Cambridge MA 02139 USA
> FON +1-617-253-5259 | FAX +1-617-253-4464 | SKYPE patrick.heimbach
> 
> _______________________________________________
> MITgcm-support mailing list
> MITgcm-support at mitgcm.org
> http://mitgcm.org/mailman/listinfo/mitgcm-support

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