Dimitri Liakhovitski
2015-Nov-05 19:00 UTC
[R] A bunch of packages keeps wanting to get updated
I am using a windows laptop, R 3.2.2 I am using R-gui. When I go to Packages -> Update packages and then select a Cran mirror (in the US) - it tells me to update the following packages: GLMMGibbs RDCOMClient Rstem survnnet yags I click OK and then I get successful update messages, like: trying URL 'http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/3.2/survnnet_1.1-3.zip' Content type 'application/zip' length 235981 bytes (230 KB) downloaded 230 KB trying URL 'http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/3.2/yags_4.0-2.2.zip' Content type 'application/zip' length 205372 bytes (200 KB) downloaded 200 KB package ?survnnet? successfully unpacked and MD5 sums checked package ?yags? successfully unpacked and MD5 sums checked Then I to to Packages -> Update packages, and exactly the same packages as before appear - as if I didn't just update them. What could be the reason? I tried to totally delete the folders of those packages, install them from scratch (successfully), still - they keep appearing in Update Pacakges widnow. Any advice? Thank you! -- Dimitri Liakhovitski
Dimitri Liakhovitski
2015-Nov-05 19:31 UTC
[R] A bunch of packages keeps wanting to get updated
Just in case:> sessionInfo()R version 3.2.2 (2015-08-14) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 7 x64 (build 7601) Service Pack 1 locale: [1] LC_COLLATE=English_United States.1252 [2] LC_CTYPE=English_United States.1252 [3] LC_MONETARY=English_United States.1252 [4] LC_NUMERIC=C [5] LC_TIME=English_United States.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base loaded via a namespace (and not attached): [1] tools_3.2.2 lavaan_0.5-19 mnormt_1.5-3 pbivnorm_0.6.0 stats4_3.2.2 [6] quadprog_1.5-5 On Thu, Nov 5, 2015 at 2:00 PM, Dimitri Liakhovitski <dimitri.liakhovitski at gmail.com> wrote:> I am using a windows laptop, R 3.2.2 > > I am using R-gui. > > When I go to Packages -> Update packages and then select a Cran mirror > (in the US) - it tells me to update the following packages: > > GLMMGibbs > RDCOMClient > Rstem > survnnet > yags > > I click OK and then I get successful update messages, like: > > trying URL 'http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/3.2/survnnet_1.1-3.zip' > Content type 'application/zip' length 235981 bytes (230 KB) > downloaded 230 KB > > trying URL 'http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/3.2/yags_4.0-2.2.zip' > Content type 'application/zip' length 205372 bytes (200 KB) > downloaded 200 KB > > package ?survnnet? successfully unpacked and MD5 sums checked > package ?yags? successfully unpacked and MD5 sums checked > > Then I to to Packages -> Update packages, and exactly the same > packages as before appear - as if I didn't just update them. > > What could be the reason? I tried to totally delete the folders of > those packages, install them from scratch (successfully), still - they > keep appearing in Update Pacakges widnow. > > Any advice? > Thank you! > > -- > Dimitri Liakhovitski-- Dimitri Liakhovitski
On 05/11/2015 1:00 PM, Dimitri Liakhovitski wrote:> I am using a windows laptop, R 3.2.2 > > I am using R-gui. > > When I go to Packages -> Update packages and then select a Cran mirror > (in the US) - it tells me to update the following packages: > > GLMMGibbs > RDCOMClient > Rstem > survnnet > yags > > I click OK and then I get successful update messages, like: > > trying URL 'http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/3.2/survnnet_1.1-3.zip' > Content type 'application/zip' length 235981 bytes (230 KB) > downloaded 230 KB > > trying URL 'http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/3.2/yags_4.0-2.2.zip' > Content type 'application/zip' length 205372 bytes (200 KB) > downloaded 200 KB > > package ?survnnet? successfully unpacked and MD5 sums checked > package ?yags? successfully unpacked and MD5 sums checked > > Then I to to Packages -> Update packages, and exactly the same > packages as before appear - as if I didn't just update them. > > What could be the reason? I tried to totally delete the folders of > those packages, install them from scratch (successfully), still - they > keep appearing in Update Pacakges widnow. > > Any advice?It may be installing them to a personal library rather than the system one (to which you typically don't have write permission). You should be getting messages about this, but they might be hidden; if you run update.packages() it might be easier to see the messages. You can also try running .libPaths() to see what libraries are searched. Duncan Murdoch
Dimitri Liakhovitski
2015-Nov-05 20:12 UTC
[R] A bunch of packages keeps wanting to get updated
Thank you, Duncan. Indeed those packages were sitting in a temp directory. I had to install them manually from a 'zip file. On Thu, Nov 5, 2015 at 2:40 PM, Duncan Murdoch <murdoch.duncan at gmail.com> wrote:> On 05/11/2015 1:00 PM, Dimitri Liakhovitski wrote: >> >> I am using a windows laptop, R 3.2.2 >> >> I am using R-gui. >> >> When I go to Packages -> Update packages and then select a Cran mirror >> (in the US) - it tells me to update the following packages: >> >> GLMMGibbs >> RDCOMClient >> Rstem >> survnnet >> yags >> >> I click OK and then I get successful update messages, like: >> >> trying URL >> 'http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/3.2/survnnet_1.1-3.zip' >> Content type 'application/zip' length 235981 bytes (230 KB) >> downloaded 230 KB >> >> trying URL >> 'http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/3.2/yags_4.0-2.2.zip' >> Content type 'application/zip' length 205372 bytes (200 KB) >> downloaded 200 KB >> >> package ?survnnet? successfully unpacked and MD5 sums checked >> package ?yags? successfully unpacked and MD5 sums checked >> >> Then I to to Packages -> Update packages, and exactly the same >> packages as before appear - as if I didn't just update them. >> >> What could be the reason? I tried to totally delete the folders of >> those packages, install them from scratch (successfully), still - they >> keep appearing in Update Pacakges widnow. >> >> Any advice? > > > It may be installing them to a personal library rather than the system one > (to which you typically don't have write permission). > > You should be getting messages about this, but they might be hidden; if you > run > > update.packages() > > it might be easier to see the messages. You can also try running > .libPaths() to see what libraries are searched. > > Duncan Murdoch >-- Dimitri Liakhovitski