Re: NONMEM 7.2 and Pirana/Xpose4
hi Maggie,
Pirana, PsN and Xpose are all compatible with NM 7.2, no problem there.
Note that the problem seems not to be with Xpose or Pirana, but with
generating output from NONMEM (the sdtab file is empty). And you can't plot
data without data :)
If you could share the control stream + dataset, I'd be happy to look into
this.
best regards,
Ron
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Ron Keizer, PharmD PhD
Post-doctoral fellow, Integrative Pharmacology
Dept. of Bioengineering & Therapeutic Sciences
University of California San Francisco (UCSF)
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Pirana Software & Consulting BV
USA / the Netherlands
www.pirana-software.com
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Quoted reply history
On Mon, Jul 8, 2013 at 9:27 AM, Thomson, Maggie <[email protected]> wrote:
> Thank you for the response. I just copied the most recent control stream
> I had which had the sdtab file labelled as sdtab104 instead of sdtab101 I
> initially used in describing the problem. Regardless of the number
> extension on the sdtab file it is not populated with any data; it is
> completely blank. I have tried exploring all the GOF plot options in Pirana
> and have not been successful in creating a single one. After some research
> I learned that Xpose4 uses the sdtab file which is why I have concentrated
> on figuring out why it is not created. In my group of at least 4 other
> people using NONMEM *7.2*, Pirana, and Xpose4 no one has been able to
> create the GOF plots or a populated sdtab file. Another person using NONMEM
> 7 appears to have had no problem creating the plots withina n the
> Pirana/Xpose environment. Is this an incompatiability with Pirana/Xpose4
> and NONMEM 7.2; and if so, is there a workaround?****
>
> ** **
>
> Maggie****
>
> ** **
>
> ** **
>
> *From:* Mukul Minocha [mailto:[email protected]]
> *Sent:* Friday, July 05, 2013 11:32 AM
> *To:* Thomson, Maggie
> *Cc:* [email protected]
> *Subject:* Re: [NMusers] NONMEM 7.2 and Pirana/Xpose4****
>
> ** **
>
> Hi Maggie,****
>
> ** **
>
> The $TABLE code seems correct. However, I would like to point out you
> mentioned sdtab101 in the text while the code has sdtab104. Also in Pirana,
> you just need to highlight the model, the right hand side panel will give
> you several options under SCRIPTS for basic GOF plots. Also, my suggestion
> to you would be to table out all the continuous and categorical covariates
> in a separate $TABLE files for plotting purposes. Following is an example
> that works well for me and what I routinely use for my runs.****
>
> ** **
>
> $TABLE ID TIME DV EVID NTIME OCC IPRED IWRES CWRES ONEHEADER NOPRINT
> FILE=sdtab005****
>
> $TABLE ID TIME KA V CL IIVKA IIVV IIVCL ONEHEADER NOPRINT FILE=patab005***
> *
>
> $TABLE ID TIME AGE WT CRCL ONEHEADER NOPRINT FILE=cotab005****
>
> $TABLE ID TIME ISM RACE ONEHEADER NOPRINT FILE=catab005****
>
> ** **
>
> See that Pirana requires these standard notations for continuous (cotab)
> and categorical (catab) covariates.****
>
> ** **
>
> Hope this helps,****
>
> ** **
>
> Mukul Minocha****
>
> Research scientist ****
>
> CTM,****
>
> University of Maryland Baltimore****
>
> ** **
>
> ** **
>
> ** **
>
> On Fri, Jul 5, 2013 at 11:24 AM, Thomson, Maggie <[email protected]>
> wrote:****
>
> I am new to NONMEM 7.2 and am having some issues generating the goodness
> of fit plots within Pirana or Xpose through the R console. I believe the
> problem is that the sdtab101 table is not created. When I try to open this
> file it is completely blank. I am having this problem both with a practice
> dataset as well as my own dataset. Below you will find the code that I am
> using to create the sdtab file. I appreciate any help so that I can
> continue analyzing my data.****
>
> ****
>
> $TABLE ID TIME DV IPRED PRED IWRES CWRES WRES NOPRINT ONEHEADER
> FILE=sdtab104****
>
> ****
>
> *Margaret Thomson, PharmD*****
>
> *PhD Candidate*****
>
> *University of Tennessee Health Science Center*****
>
> ****
>
>
>
> ****
>
> ** **
>
> --
> -Mukul ****
>