[NMusers] a question about unstable baseline for a soluble antibody target

[Wang, Xiaofeng]

Dear NMusers,



I am trying to develop a TMDD model for an antibody against its soluble target 
in a monkey study. I have observations of the target before a single antibody 
IV bolus dose. My model has two compartments for antibody and target 
respectively. The challenging part is that the baseline levels of the target 
before the antibody dose increased instead of being stable. So I am trying to 
model the changing target baseline level. In my data file, the antibody dose is 
on Time=4 (d)  instead of Time 0 (d). I have observations of target from day 0 
to day 4. My question is that if it is possible to let NONMEM compute only the 
differential equation for target from day 0 to day 4 and compute both 
differential equations for antibody and target after day 4. If yes, how should 
I set up initial values for the two differential equations? Any suggestion and 
help will be appreciated.  Thank you.



Best,

Xiaofeng

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RE: [NMusers] Error files when using multicore runs and psn ==> Fatal Error: Record SIZES is not valid

[Andrew Hooker]

Hi Pascal

 

This is not an error in PsN, this is a feature!

 

NONMEM, by default, recompiles the sizes component of a run before each
execution.  This can take time, so there is an option to turn it off and use
the default sizes (as in NONMEM versions 7.1.x and 6.x) with the
"-prdefault" command, i.e. "nmfe72 run1.mod run1.lst -prdefault". 

 

PsN allows you to specify these extra NONMEM command line options in the
configuration file "psn.conf".  If you look in your psn.conf file I suspect
you will find something like:

 

[default_options]

nmfe_options=prdefault,xmloff

 

In the case you mention below you actually need to recompile the sizes
before your NONMEM run, so this "prdefault" option should be removed.  In
PsN you can do this on the command line using the "-nmfe_options" argument.
For example:

 

execute run1.mod -nmfe_options=xmloff

 

Here, I turn off the "prdefault" NONMEM option but keep the "xmloff" option.

 

You can find this information in the following documentation:

http://psn.sourceforge.net/pdfdocs/common_options_defaults_versions_psn.pdf 

http://psn.sourceforge.net/pdfdocs/psn_configuration.pdf 

 

 

Best regards

Andy

 

Andrew Hooker, Ph.D.

Associate Professor of Pharmacometrics

Dept. of Pharmaceutical Biosciences

Uppsala University

Box 591, 751 24, Uppsala, Sweden

Phone: +46 18 471 4355

www.farmbio.uu.se/research/researchgroups/pharmacometrics/ 

 

From: owner-nmus...@globomaxnm.com [mailto:owner-nmus...@globomaxnm.com] On
Behalf Of pascal.gir...@merckgroup.com
Sent: den 12 juli 2012 17:43
To: Kassir Nastya
Cc: nmusers@globomaxnm.com; Bauer, Robert; Ekaterina Gibiansky
Subject: RE: [NMusers] Error files when using multicore runs and psn ==>
Fatal Error: Record SIZES is not valid

 

Hi Nastya, 

You were right : it is my psn installation that refuses to see something
else than $PROB as first line as I just checked by running it directly from
nmfe72  

You cannot stop the progress! 

Thanks again and Kind regards 

Pascal 



From:"Kassir Nastya"  
To:, "Bauer, Robert"
,  
Date:12/07/2012 17:25 
Subject:RE: [NMusers] Error files when using multicore runs and psn
==> Fatal Error: Record SIZES is not valid 

  _  




Hi Pascal,

I have already used it with NONMEM 72 and it works, but not in psn.

$SIZES LIM6=1000
$PROBLEM XX

Best regards,

Nastya