[R-sig-ME] Fwd: Re: R-core post from jw1085 at wildcats.unh.edu requires approval
Ben Bolker
bbolker at gmail.com
Mon May 8 21:43:06 CEST 2017
My only wild guess about this is that there are (still unresolved as
far as I know) issues with the latest version of Matrix on 32-bit
operating systems (unlikely unless you're using Linux, and even then
slightly rare). If so (sessionInfo() will tell us this), reverting to
the previous version of Matrix (e.g. see ?devtools::install_version)
should help.
On Mon, May 8, 2017 at 2:42 PM, Kevin Wright <kw.stat at gmail.com> wrote:
> Somebody might be able to look at your error message and figure out what is
> wrong, but often that is not possible just by looking. If you want people
> to help you, then you need to help people understand your problem, perhaps
> using simulated data. See:
> http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example
>
> Kevin
>
> On Mon, May 8, 2017 at 11:50 AM, Jochen Wirsing <jw1085 at wildcats.unh.edu>
> wrote:
>
>> Dear R Mixed Models SIG,
>>
>> below you will find an email that I originally sent to the R core group,
>> who technically is the maintainer of the nlme package, with which I've
>> had some serious issues since the last update. Since this seems to keep
>> preventing me from using R for my project, I am reaching out to you,
>> hoping this problem can be fixed in a timely manner, as it probably
>> affects a lot of other people as well.
>>
>>
>> Thank you very much,
>>
>> Jochen Wirsing
>>
>> -------- Forwarded Message --------
>> Subject: Re: R-core post from jw1085 at wildcats.unh.edu requires
>> approval
>> Date: Wed, 3 May 2017 15:11:09 +0530
>> From: Deepayan Sarkar <deepayan.sarkar at gmail.com>
>> To: r-core-owner at r-project.org, Jochen Wirsing <
>> jw1085 at wildcats.unh.edu>
>>
>>
>>
>> Dear Jochen Wirsing,
>>
>> Although r-core is technically the maintainer of nlme, you should
>> write to one of the public R mailing lists get help regarding such
>> problems: see
>>
>> https://www.r-project.org/mail.html
>>
>> Either R-help or R-SIG-mixed-models should be appropriate.
>>
>> Best,
>> -Deepayan
>>
>> > ---------- Forwarded message ----------
>> > From: Jochen Wirsing <jw1085 at wildcats.unh.edu>
>> > To: R-core at r-project.org
>> > Cc:
>> > Bcc:
>> > Date: Mon, 1 May 2017 11:38:09 -0400
>> > Subject: Problem with nlme after update to R 3.4.0
>> >
>> > Dear Sir or Madam,
>> >
>> > I am a grad student at UNH, teaching myself how to use R. Not having a
>> background in programming, it is a bit hard to figure out what's wrong, so
>> I thought I should let you know.
>> >
>> > Last night, I ran an MLM, and it worked just fine. This morning though,
>> I saw that there is a new Version of RStudio as well as R itself, so I
>> updated both. After doing so, the very identical code that worked last
>> night, doesn't work anymore and throws a rather obscure (at least to me)
>> error:
>> >
>> >
>> > 15.
>> > pdFactor.pdLogChol(X[[i]], ...)
>> > 14.
>> > FUN(X[[i]], ...)
>> > 13.
>> > lapply(object, pdFactor)
>> > 12.
>> > unlist(lapply(object, pdFactor))
>> > 11.
>> > pdFactor.reStruct(object)
>> > 10.
>> > pdFactor(object)
>> > 9.
>> > unlist(pdFactor(object))
>> > 8.
>> > MEEM(object, conLin, control$niterEM)
>> > 7.
>> > Initialize.reStruct(X[[i]], ...)
>> > 6.
>> > FUN(X[[i]], ...)
>> > 5.
>> > lapply(object, Initialize, data, conLin, control)
>> > 4.
>> > Initialize.lmeStruct(lmeSt, dataMix, grps, control = controlvals)
>> > 3.
>> > Initialize(lmeSt, dataMix, grps, control = controlvals)
>> > 2.
>> > lme.formula(fixed = year_c ~ 1, random = ~1 | ID, data = data, method =
>> "ML")
>> > 1.
>> > lme(fixed = year_c ~ 1, random = ~1 | ID, data = data, method = "ML")
>> >
>> >
>> >
>> > The code I used was:
>> >
>> > ### Unconditional Model
>> > library(nlme)
>> > library(broom)
>> >
>> > uncmod <- lme(fixed = year_c~1, random = ~1|ID, data = data, method
>> ="ML")
>> > tidy(uncmod)
>> > summary(uncmod)
>> > varCorr(uncmod)
>> >
>> >
>> >
>> > I hope this helps and the problem can be fixed soon, because right now,
>> I am stopped dead in my work, unable using the nlme package, on which my
>> analysis depends.
>> >
>> >
>> > Thank you very much for your consideration, help, and good work!
>> >
>> >
>> > Best,
>> >
>> >
>> > Jochen Wirsing
>>
>>
>> [[alternative HTML version deleted]]
>>
>> _______________________________________________
>> R-sig-mixed-models at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/r-sig-mixed-models
>>
>
>
>
> --
> Kevin Wright
>
> [[alternative HTML version deleted]]
>
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