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Re: FDATA file bug

From: Rikard Nordgren <rikard.nordgren>
Date: Thu, 5 Dec 2019 08:54:15 +0100

Hi Mark,

I tested your model and dataset and checked the FORM section of the FCON
file:

FORM
(E3.0,E4.0,E8.0,2E3.0,E1.0,2E6.0,E7.0,E1.0,5E6.0/2E6.0,1F2.0)

and the FDATA, first record here:
   1   0       0100100134.82338.212 1.1129042.63542.63542.63542.63542.635
42.63542.635 1

It seems to be fine. Please refer to how fortran uses the format
statement to parse strings using field sizes rather than delimiters.

Best regards,
Rikard




On 2019-12-05 08:23, Mark Tepeck wrote:
> Hi Nordgren and Denny,
>
> Thanks for your tips. Here are the NONMEM script, input CSV file row
> 1, and FDATA row 1. I also attached the original model file, CSV input
> file as well as the FDATA (not sure NMuser allows attachment) for
> troubleshooting. I did observe that multiple columns from input were
> combined to fewer columns in the FDATA file. I also found occasional
> generation of *fdata-1* file but not sure its role.
> *
> *
> *The input CSV file (17 columns) *
> CID, TIME, CONC, AMT,   DOSE, MDV, AGE,    WT,      SCR, ISM,   CLCR,
>     AA,        BB,      CC ,      DD,      EE,         FF
> 1,      0 ,        0,       100,      100,     1,     34.823, 38.212,
> 1.1129, 0    , 42.635, 42.635, 42.635, 42.635, 42.635, 42.635, 42.635
>
> *FDATA (6 columns):*  1,  0,  0100100134.82338.212,
> 1.1129042.63542.63542.63542.63542.635,   42.63542.635,1
>
> *NONMEM script:*
>
> $PROBLEM    Test Fdata
> $DATA      CS1_IV1EST_PAR.CSV  IGNORE=C
> $INPUT      ID TIME DV AMT DOSE MDV AGE WT SCR ISM CLCR AA BB CC DD EE FF
> $SUBROUTINE ADVAN1 TRANS2
> $PK
> CL = THETA(1)*EXP(ETA(1))
> V= THETA(2)*EXP(ETA(2))
> S1 = V
>
> $ERROR
> IPRED = F
> Y=F+F*ERR(1)+ERR(2)
>
> $THETA
> (0.1,1)
> (1,10,20)
> $OMEGA
> 0.09
> 0.09
> $SIGMA
> 0.09
> 1
> $ESTIMATION METH=1 MAXEVAL=9999 PRINT=5 POSTHOC
> $TABLE      ID TIME DV  FILE=CS1_IV1ESTFPDF.fit
>
> I really appreciate your input.
>
> Mark
>
>
>
>
>
> On Tue, Dec 3, 2019 at 11:57 PM Rikard Nordgren
> <rikard.nordgren
> wrote:
>
> Hi,
>
> NM-TRAN will not add columns not listed in $INPUT or
> dropped/skipped to FDATA. Could that be the reason?
>
> Best regards
> Rikard Nordgren
>
>
> On 2019-12-04 01:27, Mark Tepeck wrote:
>> Hi All,
>>
>> I am using NONMEM 7.4.3. I want to confirm the right input
>> dataset into NONMEM.  However, I found that the FDATA file can
>> save only around the beginning 9 columns of the original CSV
>> file. The ending columns (e.g., column 10-20) are either missing
>> or combined into a single column in the FDATA file.
>>
>> I am not sure other people encountered the same problem.
>>
>> Thank you,
>>
>> Mark
>
> --
> Rikard Nordgren
> Systems developer
>
> Dept of Pharmaceutical Biosciences
> Faculty of Pharmacy
> Uppsala University
> Box 591
> 75124 Uppsala
>
> Phone: +46 18 4714308
> www.farmbio.uu.se/research/researchgroups/pharmacometrics/ <http://www.farmbio.uu.se/research/researchgroups/pharmacometrics/>
>
>
>
>
>
>
>
>
>
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--
Rikard Nordgren
Systems developer

Dept of Pharmaceutical Biosciences
Faculty of Pharmacy
Uppsala University
Box 591
75124 Uppsala

Phone: +46 18 4714308
www.farmbio.uu.se/research/researchgroups/pharmacometrics/


Received on Thu Dec 05 2019 - 02:54:15 EST

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