[NMusers] Piraña release

Dear NONMEM users, I would like to inform the usersnet of a new software tool developed by our group, called Piraña, which is primarily a GUI to NONMEM. While development of Piraña was initiated to drive our cluster, we now think it might be of use to other modelers as well. Multiple NONMEM instal

[NMusers] Pirana v.2.0.0

Dear all, I would like to announce the release of Pirana version 2.0.0. Pirana is an open source modeling environment for Windows that makes modeling with NONMEM, PsN and/or WFN more convenient. Pirana can be used for NM modeling on local computers and/or on clusters. The current release is a very

Betr.: [NMusers] 20 variable limit in $INPUT

Andreas, Some months ago I spent a few hours investigating this same problem. Below are my notes. Currently I use the last approach (which is actually a workaround, sorry...), that will hopefully be redundant when NM7 arrives, best regards, Ron approaches for using more covariates in dataset:

Betr.: [NMusers] Pirana

Dear Sherwin, although I'm not sure why the error occurred, I think I know how to resolve it. In the Pirana installation folder (e.g. C:\Program Files\Pirana) go to the \ini folder and open the file nm_inst_local.ini. Remove all the lines with NM-versions that are not found on your system (espe

[NMusers] Pirana release 2.3.0

Dear all, We are happy to announce the release of a new version (2.3.0) of Pirana, the open-source modelling environment for NONMEM and PsN. Main new features: - Full support of NONMEM7 and its new output format. - Support for the Sun Grid Engine: start and manage runs from pirana - Scripting f

[NMusers] Pirana: release version 2.3.2

Dear NMusers, we are pleased to announce the release of a new version of Pirana: 2.3.2. Pirana is a flexible modeling environment for NONMEM, and supports the use of PsN and Xpose. Version 2.3.2 provides some new features, but mainly fixes bugs that have been reported over the last half a ye

Re: [NMusers] Does anyone know why R is R?

e: +82-10-7203-7945 > Email: cho...@pnuyh.co.kr > www.facebook.com/sangmin.choe > -- --- Ron Keizer, PharmD PhD Post-doctoral researcher Pharmacometrics Research Group Uppsala University ---

Re: [NMusers] Simple parallel benchmark for Nonmem 7.2 with large Bayes problem

cluster. We tested using the gfortran compiler, on a dedicated 8-core machine running Linux. best regards, Ron -- --- Ron Keizer, PharmD PhD Post-doctoral fellow Pharmacometrics Research Group Uppsala University --- table1

Re: [NMusers] Simple parallel benchmark for Nonmem 7.2 with large Bayes problem

ested using gfortran (and a NM7.2 beta), with ADVAN6/8 problems. Haven't tested final NM7.2 yet either. Ron -- ------- Ron Keizer, PharmD PhD Post-doctoral researcher Pharmacometrics Research Group Uppsala University --- On 05/

Re: [NMusers] Simple parallel benchmark for Nonmem 7.2 with large Bayes problem

re runs (WinSvr2003, Intel 11.1, 8 Intel cores) Nick On 21/05/2011 12:03 p.m., Ron Keizer wrote: Dieter, the observation that the 8-core run is slower than the 4-core run is probably not due CPU hyperthreading, as you suggest. The CPU loads that you report also suggest otherwise. I agree with M

Re: AW: [NMusers] Time to Event Model

Fax: +49(0) 228 73-9757 friederike.kanefe...@uni-bonn.de -- ------- Ron Keizer, PharmD PhD Post-doctoral fellow Pharmacometrics Research Group Uppsala University ---

[NMusers] Pirana 2.4.0 release

Dear all, It is our pleasure to announce the release of Pirana version 2.4.0. Pirana is a user friendly modeling environment from which you can create, run, manage and evaluate models and output, with optimal flexibility and customization features. This major update packs many new features an

Re: [NMusers] help on problem with baseline estimation

d Registered number: 145835 -- ------- Ron Keizer, PharmD PhD Post-doctoral fellow Pharmacometrics Research Group Uppsala University ---

Re: [NMusers] PHI inverse?

+1) goto 204 302 if((p.gt.p_high).and.(p.lt.1)) goto 203 203 q=dsqrt(-2*dlog(1-p)) z=-(c1*q+c2)*q+c3)*q+c4)*q+c5)*q+c6)/d1*q+d2)*q+d3)*q+d4)*q+1) 204 dinvnorm=z return end --- -- ------- Ron Keizer, PharmD PhD Post-doctoral fel

Re: [NMusers] PHI inverse?

n 1.15 × 10^−9 in the entire region.” Would that mean that PHI computation in NONMEM has an accuracy of 1e-05? Best regards, Chuanpu *From:*Ron Keizer [mailto:ron.kei...@farmbio.uu.se] *Sent:* Sunday, May 13, 2012 2:00 PM *To:* Hu, Chuanpu [JRDUS] *Cc:* nmusers@globomaxnm.com *Subject:* Re: [N

[NMusers] Pirana, release 2.5.0

, The Pirana development team -- --- Ron Keizer, PharmD PhD Pirana Software& Consulting BV Sweden / the Netherlands www.pirana-software.com --- Pharmacometrics Research Group Uppsala University ---

Re: [NMusers] restart NONMEM

most efficient ways to restart NONMEM if it is interrupted? NONMEM allows only one MSFO statement when several methods are used. Can supporting software packages such as PsN, xpose, wings of NONMEM, etc. help? Cheers, Bob -- --- Ron

[NMusers] Pirana, release 2.6.0

-software.com/?software/licensing.html) for more information. best regards, The Pirana development team -- --- Ron Keizer, PharmD PhD Pirana Software & Consulting BV Sweden / the Netherlands www.pirana-software.com --- Post-doct

[NMusers] Pirana 2.7.1 release

dear all, please find the new version of Pirana available for download on our website: www.pirana-software.com. This version is mainly a service update with many small improvements under the hood and bug-fixes. best regards, -- Ron Keizer, PhD Pirana

Re: [NMusers] NONMEM 7.2 and Pirana/Xpose4

taset, I'd be happy to look into this. best regards, Ron ------ Ron Keizer, PharmD PhD Post-doctoral fellow, Integrative Pharmacology Dept. of Bioengineering & Therapeutic Sciences University of California San F

Re: [NMusers] NONMEM 7.2 and Pirana/Xpose4

... -- Ron Keizer, PharmD PhD Post-doctoral fellow, Integrative Pharmacology Dept. of Bioengineering & Therapeutic Sciences University of California San Francisco (UCSF) -- Pirana Software & Consulting BV USA / the Netherlands www.pirana-soft

Re: [NMusers] Error in NONMEM (78)

hi Xinting, this error indicates that the nonmem process was terminated. Did you kill the run perhaps by accident? Was the server you are running on rebooted? If you are using a job scheduler (SGE / Torque / Condor / SLURM etc) it may be that your process ran over the allotted time window (24hrs is

Re: [NMusers] Negative DV values

/2413-PAGE_2010_poster_LLOQ_v1.pdf), but it should be intuitive too. best regards, Ron ------ Ron Keizer, PharmD PhD Dept. of Bioengineering & Therapeutic Sciences University of California San Francisco (UCSF) -- On T

Re: [NMusers] Cross-validation script in NM

de of NONMEM, e.g. in R or Perl. That way you will have full control over what is going on, and you'll use NONMEM only for what it is good at (i.e. estimation). hope this helps, Ron ------ Ron Keizer, PharmD PhD Dept. of Bioengineering & Therap

Re: [NMusers] Problem of using NM on Server

nd the number of nodes, and it will generate the parafile for you and start the run. Hope this helps, Ron ---------- Ron Keizer, PharmD PhD Pirana Software & Consulting BV California / the Netherlands www.pirana-software.com --

Re: [NMusers] scm problem

hi Muhammad, a brief guidance on how to do a stepwise covariate search with PsN+Pirana is given in our recent tutorial in CPT-PSP ( http://onlinelibrary.wiley.com/doi/10.1038/psp.2013.24/abstract), in which we used the scm tool in PsN, and Pirana to generate the scm config file. Let me know if you

Re: [NMusers] Humongous log file with parallel NONMEM

t 'rm *.log' here to ensure that log-files in subfolders will also be deleted, e.g. useful when using via PsN - run the command only once, the watch process will stay active - only works on linux best regards, Ron ---------- Ron Keizer, PharmD PhD Pi

Re: [NMusers] Humongous log file with parallel NONMEM

og >> >> (After deleting the log if one already exists) >> >> Data written to the log file is actually written to the null device, >> which discards the data - two tests seem to indicate that it could work. >> >> Best regards, >> >> Erik >>

Re: [NMusers] forest plots in Xpose?

dear Pascal, there seem to be copies of that library e.g. here (*http://www2.uaem.mx/r-mirror/web/packages/popPK/index.html *) and here ( https://cran.r-project.org/src/contrib/Archive/popPK/). You should be able to download from there an

Re: [NMusers] Imputation of multiple categorical covariates with missing data

hi Yassine, There are alternatives to the mixture approach that would probably work better in your case and can be used in the context of an scm too, see e.g.: AAPS J. 2013 Oct;15(4):1232-41. doi: 10.1208/s12248-013-9526-y. Comparison of methods for handling missing covariate data. Johansson ÅM,

[NMusers] Position for data scientist / pharmacometrician at InsightRX

ct j...@insight-rx.com for further details or to apply. ---- Ron Keizer, PharmD PhD Chief scientific officer www.insight-rx.com <http://www.insightr-rx.com/>

Re: [NMusers] RE: question about random seed for simulation

Same for PKPDsim (when `seed` argument specified): all subjects sampled up front, so inserting / removing observations has no effect on sampled parameters. Ron On Thu, Mar 9, 2017 at 3:56 PM, Kyle Baron wrote: > > To Ruben's question: mrgsolve simulates the subjects up front as well. > The subj

[NMusers] Pharmacometrician opportunity InsightRX

clinicians individualize dosing for complex medications where a ‘one-size-fits-all’ treatment approach leads to suboptimal clinical outcomes. Our team is fast-paced, results-oriented, and mission driven. Apply here: https://bit.ly/3H8uKcN -- Ron Keizer, PharmD PhD Chief Scientific