R help - Oct 2015 - Having trouble updating and installing R 3.2.1 and 3.2.2

I uninstalled all versions of R on my computer and killed all R directories (I
think).

I am wondering that since I ?upgraded? to Windows 10 is it possible that I
should create a user separate from the administrator account? My previous
version of Windows was 7 Home I think.

Here is a longer version of the error messages that I get.
> install.packages("sm")
Installing package into ?C:/Users/Administrator/My Documents/R/win-library/3.2?
(as ?lib? is unspecified)
--- Please select a CRAN mirror for use in this session ---
Warning: unable to access index for repository
https://cran.cnr.Berkeley.edu/src/contrib
Warning: unable to access index for repository
https://cran.cnr.Berkeley.edu/bin/windows/contrib/3.2
Warning messages:
1: In normalizePath(path.expand(path), winslash, mustWork) :
  path[1]="C:/Users/Administrator/My Documents/R/win-library/3.2":
Access is denied
2: package ?sm? is not available (for R version 3.2.2) 


Thanks for your help,
KW

> On Oct 25, 2015, at 7:15 PM, Jeff Newmiller <jdnewmil at
dcn.davis.CA.us> wrote:
> 
> I would guess that you ran R as administrator at some point and now you
have a permissions problem on your user library. I can't say I know how to
fix it, though using administrator mode to fix the permissions is probably hard
while using administrator mode to delete the R directory and reinstalling your
packages might be easier.
> ---------------------------------------------------------------------------
> Jeff Newmiller                        The     .....       .....  Go Live...
> DCN:<jdnewmil at dcn.davis.ca.us>        Basics: ##.#.       ##.#. 
Live Go...
>                                      Live:   OO#.. Dead: OO#..  Playing
> Research Engineer (Solar/Batteries            O.O#.       #.O#.  with
> /Software/Embedded Controllers)               .OO#.       .OO#.  rocks...1k
> ---------------------------------------------------------------------------
> Sent from my phone. Please excuse my brevity.
> 
> On October 25, 2015 7:50:07 AM PDT, Keith S Weintraub <kw1958 at
gmail.com> wrote:
>> I get the following error:
>> 
>> Warning message:
>> In normalizePath(path.expand(path), winslash, mustWork) :
>> path[1]="C:\Users\Administrator\My
Documents/R/win-library/3.2": Access
>> is denied
>> 
>> This may be the first time that I have tried to upgrade R since I
>> upgraded my Windows installation (on Parallels on my Mac no less) to
>> Windows 10.
>> 
>> Needless to say when I try to install packages outside of core CRAN I
>> have issues.
>> 
>> Any help is greatly appreciated.
>> 
>> Thanks much,
>> KW
>> 
>> ______________________________________________
>> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
>> https://stat.ethz.ch/mailman/listinfo/r-help
>> PLEASE do read the posting guide
>> http://www.R-project.org/posting-guide.html
>> and provide commented, minimal, self-contained, reproducible code.
>

I have not used W10, but for quite awhile the *administrator" account (not
the hidden one named "Administrator") has merely had the right to
"Run As Administrator"... but doing so explicitly is not recommended
unless you definitely know what you are doing (in which case you should not be
asking for help here). As long as you let the UAC (User Account Control) prompt
you at the necessary moments you should not have permissions trouble. If you
have followed this advice already then there might be a bug in the installer,
but I would have thought I would have seen more complaints by now if it was a
bug.
---------------------------------------------------------------------------
Jeff Newmiller                        The     .....       .....  Go Live...
DCN:<jdnewmil at dcn.davis.ca.us>        Basics: ##.#.       ##.#.  Live
Go...
                                      Live:   OO#.. Dead: OO#..  Playing
Research Engineer (Solar/Batteries            O.O#.       #.O#.  with
/Software/Embedded Controllers)               .OO#.       .OO#.  rocks...1k
--------------------------------------------------------------------------- 
Sent from my phone. Please excuse my brevity.

On October 26, 2015 6:16:47 AM PDT, Keith S Weintraub <kw1958 at
gmail.com> wrote:
>I uninstalled all versions of R on my computer and killed all R
>directories (I think).
>
>I am wondering that since I ?upgraded? to Windows 10 is it possible
>that I should create a user separate from the administrator account? My
>previous version of Windows was 7 Home I think. 
>
>Here is a longer version of the error messages that I get.
>
>> install.packages("sm")
>Installing package into ?C:/Users/Administrator/My
>Documents/R/win-library/3.2?
>(as ?lib? is unspecified)
>--- Please select a CRAN mirror for use in this session ---
>Warning: unable to access index for repository
>https://cran.cnr.Berkeley.edu/src/contrib
>Warning: unable to access index for repository
>https://cran.cnr.Berkeley.edu/bin/windows/contrib/3.2
>Warning messages:
>1: In normalizePath(path.expand(path), winslash, mustWork) :
>path[1]="C:/Users/Administrator/My Documents/R/win-library/3.2":
Access
>is denied
>2: package ?sm? is not available (for R version 3.2.2) 
>
>
>Thanks for your help,
>KW
>
>
>> On Oct 25, 2015, at 7:15 PM, Jeff Newmiller
><jdnewmil at dcn.davis.CA.us> wrote:
>> 
>> I would guess that you ran R as administrator at some point and now
>you have a permissions problem on your user library. I can't say I know
>how to fix it, though using administrator mode to fix the permissions
>is probably hard while using administrator mode to delete the R
>directory and reinstalling your packages might be easier.
>>
>---------------------------------------------------------------------------
>> Jeff Newmiller                        The     .....       .....  Go
>Live...
>> DCN:<jdnewmil at dcn.davis.ca.us>        Basics: ##.#.      
##.#.  Live
>Go...
>>                                      Live:   OO#.. Dead: OO#.. 
>Playing
>> Research Engineer (Solar/Batteries            O.O#.       #.O#.  with
>> /Software/Embedded Controllers)               .OO#.       .OO#. 
>rocks...1k
>>
>---------------------------------------------------------------------------
>
>> Sent from my phone. Please excuse my brevity.
>> 
>> On October 25, 2015 7:50:07 AM PDT, Keith S Weintraub
><kw1958 at gmail.com> wrote:
>>> I get the following error:
>>> 
>>> Warning message:
>>> In normalizePath(path.expand(path), winslash, mustWork) :
>>> path[1]="C:\Users\Administrator\My
Documents/R/win-library/3.2":
>Access
>>> is denied
>>> 
>>> This may be the first time that I have tried to upgrade R since I
>>> upgraded my Windows installation (on Parallels on my Mac no less)
to
>>> Windows 10.
>>> 
>>> Needless to say when I try to install packages outside of core CRAN
>I
>>> have issues.
>>> 
>>> Any help is greatly appreciated.
>>> 
>>> Thanks much,
>>> KW
>>> 
>>> ______________________________________________
>>> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more,
see
>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>> PLEASE do read the posting guide
>>> http://www.R-project.org/posting-guide.html
>>> and provide commented, minimal, self-contained, reproducible code.
>>

You might also want to try a different mirror.
---------------------------------------------------------------------------
Jeff Newmiller                        The     .....       .....  Go Live...
DCN:<jdnewmil at dcn.davis.ca.us>        Basics: ##.#.       ##.#.  Live
Go...
                                      Live:   OO#.. Dead: OO#..  Playing
Research Engineer (Solar/Batteries            O.O#.       #.O#.  with
/Software/Embedded Controllers)               .OO#.       .OO#.  rocks...1k
--------------------------------------------------------------------------- 
Sent from my phone. Please excuse my brevity.

On October 26, 2015 6:49:42 AM PDT, Jeff Newmiller <jdnewmil at
dcn.davis.ca.us> wrote:
>I have not used W10, but for quite awhile the *administrator" account
>(not the hidden one named "Administrator") has merely had the
right to
>"Run As Administrator"... but doing so explicitly is not
recommended
>unless you definitely know what you are doing (in which case you should
>not be asking for help here). As long as you let the UAC (User Account
>Control) prompt you at the necessary moments you should not have
>permissions trouble. If you have followed this advice already then
>there might be a bug in the installer, but I would have thought I would
>have seen more complaints by now if it was a bug.
>---------------------------------------------------------------------------
>Jeff Newmiller                        The     .....       .....  Go
>Live...
>DCN:<jdnewmil at dcn.davis.ca.us>        Basics: ##.#.       ##.#. 
Live
>Go...
>                                     Live:   OO#.. Dead: OO#..  Playing
>Research Engineer (Solar/Batteries            O.O#.       #.O#.  with
>/Software/Embedded Controllers)               .OO#.       .OO#. 
>rocks...1k
>---------------------------------------------------------------------------
>
>Sent from my phone. Please excuse my brevity.
>
>On October 26, 2015 6:16:47 AM PDT, Keith S Weintraub
><kw1958 at gmail.com> wrote:
>>I uninstalled all versions of R on my computer and killed all R
>>directories (I think).
>>
>>I am wondering that since I ?upgraded? to Windows 10 is it possible
>>that I should create a user separate from the administrator account?
>My
>>previous version of Windows was 7 Home I think. 
>>
>>Here is a longer version of the error messages that I get.
>>
>>> install.packages("sm")
>>Installing package into ?C:/Users/Administrator/My
>>Documents/R/win-library/3.2?
>>(as ?lib? is unspecified)
>>--- Please select a CRAN mirror for use in this session ---
>>Warning: unable to access index for repository
>>https://cran.cnr.Berkeley.edu/src/contrib
>>Warning: unable to access index for repository
>>https://cran.cnr.Berkeley.edu/bin/windows/contrib/3.2
>>Warning messages:
>>1: In normalizePath(path.expand(path), winslash, mustWork) :
>>path[1]="C:/Users/Administrator/My
Documents/R/win-library/3.2":
>Access
>>is denied
>>2: package ?sm? is not available (for R version 3.2.2) 
>>
>>
>>Thanks for your help,
>>KW
>>
>>
>>> On Oct 25, 2015, at 7:15 PM, Jeff Newmiller
>><jdnewmil at dcn.davis.CA.us> wrote:
>>> 
>>> I would guess that you ran R as administrator at some point and now
>>you have a permissions problem on your user library. I can't say I
>know
>>how to fix it, though using administrator mode to fix the permissions
>>is probably hard while using administrator mode to delete the R
>>directory and reinstalling your packages might be easier.
>>>
>>---------------------------------------------------------------------------
>>> Jeff Newmiller                        The     .....       .....  Go
>>Live...
>>> DCN:<jdnewmil at dcn.davis.ca.us>        Basics: ##.#.      
##.#.
>Live
>>Go...
>>>                                      Live:   OO#.. Dead: OO#.. 
>>Playing
>>> Research Engineer (Solar/Batteries            O.O#.       #.O#. 
>with
>>> /Software/Embedded Controllers)               .OO#.       .OO#. 
>>rocks...1k
>>>
>>---------------------------------------------------------------------------
>>
>>> Sent from my phone. Please excuse my brevity.
>>> 
>>> On October 25, 2015 7:50:07 AM PDT, Keith S Weintraub
>><kw1958 at gmail.com> wrote:
>>>> I get the following error:
>>>> 
>>>> Warning message:
>>>> In normalizePath(path.expand(path), winslash, mustWork) :
>>>> path[1]="C:\Users\Administrator\My
Documents/R/win-library/3.2":
>>Access
>>>> is denied
>>>> 
>>>> This may be the first time that I have tried to upgrade R since
I
>>>> upgraded my Windows installation (on Parallels on my Mac no
less)
>to
>>>> Windows 10.
>>>> 
>>>> Needless to say when I try to install packages outside of core
CRAN
>>I
>>>> have issues.
>>>> 
>>>> Any help is greatly appreciated.
>>>> 
>>>> Thanks much,
>>>> KW
>>>> 
>>>> ______________________________________________
>>>> R-help at r-project.org mailing list -- To UNSUBSCRIBE and
more, see
>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>> PLEASE do read the posting guide
>>>> http://www.R-project.org/posting-guide.html
>>>> and provide commented, minimal, self-contained, reproducible
code.
>>>
>
>______________________________________________
>R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
>https://stat.ethz.ch/mailman/listinfo/r-help
>PLEASE do read the posting guide
>http://www.R-project.org/posting-guide.html
>and provide commented, minimal, self-contained, reproducible code.

Jeff et. al (although there are no others so far on this thread).

I finally gave up and decided to use 4.2 below from the "R for Windows FAQ?

_________________________________________________________
4.2 I don?t have permission to write to the R-3.2.2\library directory.

You can install packages anywhere and use the environment variable R_LIBS (see
How do I set environment variables?) to point to the library location(s).

Suppose your packages are installed in p:\myRlib. Then you can EITHER 

set the environment variable R_LIBS to p:/myRlib before starting R


OR use a package by, e.g. 

library(mypkg, lib.loc="p:/myRlib")


You can also have a personal library, which defaults to the directory
R\win-library\x.y of your home directory for versions x.y.z of R. This location
can be changed by setting the environment variable R_LIBS_USER, and can be found
from inside R by running Sys.getenv("R_LIBS_USER"). This will only be
used if it exists so you may need to create it: you can use

dir.create(Sys.getenv("R_LIBS_USER"), recursive = TRUE)


to do so. If you use install.packages and do not have permission to write to the
main or site library, it should offer to create a personal library for you and
install the packages there. This will also happen if update.packages offers to
update packages for you in a library where you do not have write permission.

There can be additional security issues under Windows Vista and later: See Does
R run under Windows Vista?. In particular, the detection that a standard user
has suitable permissions appears to be unreliable under Vista, so we recommend
that you do create a personal directory yourself.

_________________________________________________________________________



---
KW


> On Oct 26, 2015, at 9:49 AM, Jeff Newmiller <jdnewmil at
dcn.davis.CA.us> wrote:
> 
> I have not used W10, but for quite awhile the *administrator" account
(not the hidden one named "Administrator") has merely had the right to
"Run As Administrator"... but doing so explicitly is not recommended
unless you definitely know what you are doing (in which case you should not be
asking for help here). As long as you let the UAC (User Account Control) prompt
you at the necessary moments you should not have permissions trouble. If you
have followed this advice already then there might be a bug in the installer,
but I would have thought I would have seen more complaints by now if it was a
bug.
> ---------------------------------------------------------------------------
> Jeff Newmiller                        The     .....       .....  Go Live...
> DCN:<jdnewmil at dcn.davis.ca.us>        Basics: ##.#.       ##.#. 
Live Go...
>                                      Live:   OO#.. Dead: OO#..  Playing
> Research Engineer (Solar/Batteries            O.O#.       #.O#.  with
> /Software/Embedded Controllers)               .OO#.       .OO#.  rocks...1k
> ---------------------------------------------------------------------------
> Sent from my phone. Please excuse my brevity.
> 
> On October 26, 2015 6:16:47 AM PDT, Keith S Weintraub <kw1958 at
gmail.com> wrote:
>> I uninstalled all versions of R on my computer and killed all R
>> directories (I think).
>> 
>> I am wondering that since I ?upgraded? to Windows 10 is it possible
>> that I should create a user separate from the administrator account? My
>> previous version of Windows was 7 Home I think. 
>> 
>> Here is a longer version of the error messages that I get.
>> 
>>> install.packages("sm")
>> Installing package into ?C:/Users/Administrator/My
>> Documents/R/win-library/3.2?
>> (as ?lib? is unspecified)
>> --- Please select a CRAN mirror for use in this session ---
>> Warning: unable to access index for repository
>> https://cran.cnr.Berkeley.edu/src/contrib
>> Warning: unable to access index for repository
>> https://cran.cnr.Berkeley.edu/bin/windows/contrib/3.2
>> Warning messages:
>> 1: In normalizePath(path.expand(path), winslash, mustWork) :
>> path[1]="C:/Users/Administrator/My
Documents/R/win-library/3.2": Access
>> is denied
>> 2: package ?sm? is not available (for R version 3.2.2) 
>> 
>> 
>> Thanks for your help,
>> KW
>> 
>> 
>>> On Oct 25, 2015, at 7:15 PM, Jeff Newmiller
>> <jdnewmil at dcn.davis.CA.us> wrote:
>>> 
>>> I would guess that you ran R as administrator at some point and now
>> you have a permissions problem on your user library. I can't say I
know
>> how to fix it, though using administrator mode to fix the permissions
>> is probably hard while using administrator mode to delete the R
>> directory and reinstalling your packages might be easier.
>>> 
>>
---------------------------------------------------------------------------
>>> Jeff Newmiller                        The     .....       .....  Go
>> Live...
>>> DCN:<jdnewmil at dcn.davis.ca.us>        Basics: ##.#.      
##.#.  Live
>> Go...
>>>                                     Live:   OO#.. Dead: OO#.. 
>> Playing
>>> Research Engineer (Solar/Batteries            O.O#.       #.O#. 
with
>>> /Software/Embedded Controllers)               .OO#.       .OO#. 
>> rocks...1k
>>> 
>>
---------------------------------------------------------------------------
>> 
>>> Sent from my phone. Please excuse my brevity.
>>> 
>>> On October 25, 2015 7:50:07 AM PDT, Keith S Weintraub
>> <kw1958 at gmail.com> wrote:
>>>> I get the following error:
>>>> 
>>>> Warning message:
>>>> In normalizePath(path.expand(path), winslash, mustWork) :
>>>> path[1]="C:\Users\Administrator\My
Documents/R/win-library/3.2":
>> Access
>>>> is denied
>>>> 
>>>> This may be the first time that I have tried to upgrade R since
I
>>>> upgraded my Windows installation (on Parallels on my Mac no
less) to
>>>> Windows 10.
>>>> 
>>>> Needless to say when I try to install packages outside of core
CRAN
>> I
>>>> have issues.
>>>> 
>>>> Any help is greatly appreciated.
>>>> 
>>>> Thanks much,
>>>> KW
>>>> 
>>>> ______________________________________________
>>>> R-help at r-project.org mailing list -- To UNSUBSCRIBE and
more, see
>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>> PLEASE do read the posting guide
>>>> http://www.R-project.org/posting-guide.html
>>>> and provide commented, minimal, self-contained, reproducible
code.
>>> 
>