Re: $ABBR REPLACE Limitations?
Bill,
An alternative, and IMHO more convenient, method of coding parameters, written as THETA, ETA and EPS/ERR indexed variables, is to use the ntcs.awk script provided as part of Wings for NONMEM. < http://wfn.sourceforge.net/ > I developed WFN in 1990 and one its primary aims was to allow the user to code these variables as meaningful user defined names and stop having to count vector indices.
ntcs.awk is an awk script that can be used on any platform that can run awk (all NONMEM platforms as far as I know). You can use arbitrarily long names for your parameters as long as they are unique.
It should just be one line added to any script you currently use with standard NM-TRAN. You don't have to use any other part of WFN. You can then forgot about counting the parameter vector index and having to redo everything if you change the order parameters or insert parameters.
Best wishes,
Nick
Quoted reply history
On 24-Jan-18 13:40, Bill Denney wrote:
> Hi Luann,
>
> I’m not having similar problems with other parameters with >6 characters. I had a similar issue with ALAG1, so I think that there are limitations on what types of variables you can remap. (Perhaps Allison or Bob could confirm?)
>
> Thanks,
>
> Bill
>
> *From:* Luann Phillips [ mailto: [email protected] < mailto: [email protected] >]
>
> *Sent:* Tuesday, January 23, 2018 3:51 PM
>
> *To:* Bill Denney < [email protected] < mailto: [email protected] >>
>
> *Cc:* nmusers <[email protected] <mailto:[email protected]>>
> *Subject:* Re: [NMusers] $ABBR REPLACE Limitations?
>
> Bill,
>
> I know at one time NM had a bug (haven't checked to see if it has been fixed) that would cause variables with the first 6 characters the same to be interpreted as the same variable even when later characters differed. I wonder if this is a similar issue?
>
> Have you tried a shorter variable name, such as FCD1GUT=F1?
>
> Just a thought,
>
> Luann
>
> ------------------------------------------------------------------------
>
> *From: *"Bill Denney" < [email protected] < mailto: [email protected] >>
>
> *To: *"nmusers" <[email protected] <mailto:[email protected]>>
> *Sent: *Tuesday, January 23, 2018 2:15:32 PM
> *Subject: *[NMusers] $ABBR REPLACE Limitations?
>
> Hi,
>
> I’m working in NONMEM 7.4.1 with a model where I need to track 4 drugs simultaneously. To increase the model quality, I’m making heavy use of $ABBR REPLACE to keep track of THETA, ETA, and CMT numbers. I traced an issue with my model where there was no gradient on a bioavailability term to the fact that this substitution didn’t seem to be working:
>
> $ABBR REPLACE FCMTD1GUT=F1
>
> …
>
> $PK
>
> …
>
> FCMTD1GUT = THETA(1)
>
> FCMTD1GUT didn’t seem to be effectively replaced to F1, so the bioavailability parameters had no effect. When I changed it to just directly name F1, it worked as expected.
>
> $PK
>
> …
>
> F1 = THETA(1)
>
> It’s not obvious from the $ABBR REPLACE section of the manual that this is a limitation of $ABBR REPLACE. Is this an issue or am I missing something?
>
> Thanks,
>
> Bill
>
> ------------------------------------------------------------------------
>
> Human Predictions Logo < http://www.humanpredictions.com/ >*William S. Denney, PhD*
>
> Chief Scientist, Human Predictions LLC
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