On Fri, 11 Dec 2015, Duncan Murdoch wrote:
I don't see that. You need to give more details: I'd start with
sessionInfo(), and the version number of the pbkrtest package that you're
trying to install. (If R is downloading it for you,
available.packages()["pbkrtest",] will give lots of useful information.)
Duncan,
Started R and the update.packages() function. Selected the Seattle, WA
one.
pbkrtest :
Version 0.4-2 installed in /usr/lib/R/library
Version 0.4-3 available at https://cran.fhcrc.org
Update (y/N/c)? y
trying URL 'https://cran.fhcrc.org/src/contrib/pbkrtest_0.4-3.tar.gz'
Content type 'application/x-gzip' length 164415 bytes (160 KB)
==================================================
downloaded 160 KB
* installing *source* package ‘pbkrtest’ ...
** package ‘pbkrtest’ successfully unpacked and MD5 sums checked
** R
** data
** inst
** preparing package for lazy loading
Warning: replacing previous import by ‘stats::sigma’ when loading ‘pbkrtest’
Error : object ‘sigma’ is not exported by 'namespace:stats'
ERROR: lazy loading failed for package ‘pbkrtest’
* removing ‘/usr/lib/R/library/pbkrtest’
* restoring previous ‘/usr/lib/R/library/pbkrtest’
The downloaded source packages are in
‘/tmp/RtmpQGb2HS/downloaded_packages’
Updating HTML index of packages in '.Library'
Making 'packages.html' ... done
Warning message:
In install.packages(update[instlib == l, "Package"], l, contriburl =
contriburl, :
installation of package ‘pbkrtest’ had non-zero exit status
sessionInfo()
R version 3.2.2 (2015-08-14)
Platform: i486-slackware-linux-gnu (32-bit)
Running under: Slackware 14.1
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=C
[5] LC_MONETARY=en_US.UTF-8 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] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] tools_3.2.2 tcltk_3.2.2
available.packages()["pbkrtest",]
Package
"pbkrtest"
Version
"0.4-3"
Priority
NA
Depends
"R (>= 3.0.2), lme4 (>= 1.1.10)"
Imports
"Matrix (>= 1.1.1), parallel, MASS, methods"
LinkingTo
NA
Suggests
"gplots"
Enhances
NA
License
"GPL (>= 2)"
License_is_FOSS
NA
License_restricts_use
NA
OS_type
NA
Archs
NA
MD5sum
NA
NeedsCompilation
"no"
File
NA
Repository
"https://cran.fhcrc.org/src/contrib";
Installed is lme4 Version: 1.1-10.
Rich
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