Re: error message from xpose
Hi Mark,
Can you try specifying more in the arguments for the function
xpose::xpose_data? I typically include these below when I run xpose on R:
xpdb <- xpose_data(runno = "001", ext = ".lst", prefix = "run", dir = "./
msale/XXX/xpose")
If it doesn't work, can you post this issue on
https://github.com/UUPharmacometrics/xpose/issues for the xpose package
developer to help?
-Duy Tran
Quoted reply history
On Fri, Feb 14, 2020 at 12:41 PM Mark Sale <[email protected]> wrote:
> I know this is a NONMEM list server, but, need help with xpose, hope
> you'll indulge me. Moving to the latest xpose (from xpose4). I ran a model
> (using PSN, execute), model file called run001.mod, the $TABLE records are:
>
> $TABLE ID TIME TAD IPRED IWRES NOPRINT ONEHEADER FILE=sdtab001
> $TABLE ID K S2 KA CL ETA1 ETA2 ETA3 NOPRINT NOAPPEND ONEHEADER
> FILE=patab001
> $TABLE ID STDY SEXN RACEN XXXXX XXXXXX NOPRINT NOAPPEND
> ONEHEADER FILE=catab001
> $TABLE ID AGE XXXXX XXXXX XXXX XXXXX
> NOPRINT NOAPPEND ONEHEADER FILE=cotab001
> $TABLE ID TIME DV EVID CWRES IWRES XXXX IPRED NOPRINT NOAPPEND
> ONEHEADER FILE=cwtab001
>
> I'm trying to load the data in to xpose, with command:
> xpdb <- xpose::xpose_data(runno = '001')
>
> getting this ouput:
>
> Looking for nonmem output tables.
> Reading: sdtab001, patab001, catab001, cotab001, cwtab001 [$prob no.1]
>
> Looking for nonmem output files
> Reading: run001.ext, run001.phi
> Warning messages:
> 1: No tidyselect variables were registered
> 2: Failed to create run summary. No tidyselect variables were registered
> 3: No tidyselect variables were registered
>
>
> I think all the required files are there:
>
>
> Volume in drive E is New Volume
> Volume Serial Number is CC55-6FD7
>
> Directory of E:\msale\XXX\xpose
>
> 02/14/2020 03:23 PM 564,745 catab001
> 02/14/2020 03:23 PM 731,389 cotab001
> 02/14/2020 03:23 PM 675,841 cwtab001
> 02/14/2020 03:23 PM 675,841 patab001
> 02/14/2020 03:23 PM 14 run001.cpu
> 02/14/2020 03:23 PM 3,615 run001.ext
> 02/14/2020 03:23 PM 1,857 run001.log
> 02/14/2020 03:23 PM 18,201 run001.lst
> 02/14/2020 03:19 PM 3,620 run001.mod
> 02/14/2020 03:23 PM 173,746 run001.phi
> 02/14/2020 03:23 PM 1,197 run001.shk
> 02/14/2020 03:23 PM 37,664 run001.shm
> 02/14/2020 03:23 PM 20,400 run001.xml
> 02/14/2020 03:23 PM 509,197 sdtab001
> 14 File(s) 3,417,327 bytes
> 0 Dir(s) 59,120,144,384 bytes free
>
>
> Base on a search for this error, it looks like it comes from dplyr. I'm
> running dplyr version 0.8.4, xpose version 0.4.7 and R version 3.6.2 with R
> Studio, under Windows 10.
>
> I've tried it with and without the NOAPPEND in the $TABLE records.
>
> Any suggestions would be appreciated.
>
>
>
> Mark Sale M.D.
>
> Senior Vice President, Pharmacometrics
>
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