Terry,
I don't see the problem in R 2.11.0 or R 2.10.1 Patched
(session info for R 2.10.1 below) with Windows (Vista).
I do get warnings about kinship having been built under
R 2.11.0 when I use R 2.10.1.
But I notice that your version of kinship looks somewhat
dated. Is that intentional?
-Peter Ehlers
> sessionInfo()
R version 2.10.1 Patched (2010-01-05 r50896)
i386-pc-mingw32
locale:
[1] LC_COLLATE=English_Canada.1252 LC_CTYPE=English_Canada.1252
[3] LC_MONETARY=English_Canada.1252 LC_NUMERIC=C
[5] LC_TIME=English_Canada.1252
attached base packages:
[1] splines stats graphics grDevices utils datasets methods
[8] base
other attached packages:
[1] kinship_1.1.0-23 lattice_0.18-3 nlme_3.1-96 survival_2.35-8
loaded via a namespace (and not attached):
[1] grid_2.10.1
On 2010-04-23 9:20, Terry Therneau wrote:
I've finally narrowed down a puzzling problem: here is the short test
case.
tmt34% R --vanilla
R version 2.10.0 (2009-10-26)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
temp<- matrix(runif(50), ncol=2)
t(temp) %*% temp
[,1] [,2]
[1,] 7.916016 6.049698
[2,] 6.049698 7.650694
library(kinship)
Loading required package: survival
Loading required package: splines
Loading required package: nlme
Loading required package: lattice
t(temp) %*% temp
`__Deferred_Default_Marker__`
-----------------------------------------
Within the library is a definition of %*% for bdsmatrix objects, which
is perhaps the issue. But I'm only guessing since I don't have a clear
idea what the error message means. Any hints are appreciated.
The new coxme/bsdmatrix packages need only a couple more functions to be
a complete replacement for kinship, at which point we will depreciate
it. (Pedigrees and plotting were finished last weekend!) But I can't
quite do that yet. The error does not arise with these newer libraries.
There have been no changes to kinship for some time.
Terry Therneau
sessionInfo()
R version 2.10.0 (2009-10-26)
x86_64-unknown-linux-gnu
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=C
[5] LC_MONETARY=C LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] splines stats graphics grDevices utils datasets
methods
[8] base
other attached packages:
[1] kinship_1.1.0-11 lattice_0.17-26 nlme_3.1-96 survival_2.35-9
loaded via a namespace (and not attached):
[1] grid_2.10.0
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--
Peter Ehlers
University of Calgary
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