R help - Feb 2013 - Error in setwd(outDir) : cannot change working directory

I installed R on my Windows laptop in C:\Program Files\R\R-2.15.2

and am able to open RGUI  (640bit), see packages and run commands. However,
when I test the installation and run the basic tests and all the tests on
the standard and recommended packages i.e.:

      library("tools")

      testInstalledBasic("both")

      testInstalledPackages("base", errorsAreFatal = FALSE)

      testInstalledPackages("recommended", errorsAreFatal = FALSE)



I am getting errors such as:

 > testInstalledPackages("base",errorsAreFatal=FALSE)

 Error in setwd(outDir) : cannot change working directory



my working driectory is:
>getwd()
[1] "C:/Users/jpapa/Documents"
 In which I see R folder as well as the .rData from my last session.

what does the wd have to do with the output directory? Do  I need to create
an output directory? DO I need to setwd(outDir)?

do i need to change the wd (for example to the Pogram Files directory where
R is installed or to another directory I need to create? if so, how do I do
this?





i also noticed that i have packages in

\library ‘C:/Users/jpapa/Documents/R/win-library/2.15’

and in library ‘C:/Program Files/R/R-2.15.2/library’.

Do all packages need to be in one place? If so, should they be in my
Documents or in Program Files?



Thank you for your help.



******************************************************************


*Joanna Papakonstantinou, Ph.D.*

	[[alternative HTML version deleted]]

On Wed, Feb 20, 2013 at 11:54 AM, Joanna Papakonstantinou
<joanna.papa at gmail.com> wrote:
> I installed R on my Windows laptop in C:\Program Files\R\R-2.15.2
>
> and am able to open RGUI  (640bit), see packages and run commands. However,
> when I test the installation and run the basic tests and all the tests on
> the standard and recommended packages i.e.:
>
>       library("tools")
>
>       testInstalledBasic("both")
>
>       testInstalledPackages("base", errorsAreFatal = FALSE)
>
>       testInstalledPackages("recommended", errorsAreFatal =
FALSE)
>
>
>
> I am getting errors such as:
>
>  > testInstalledPackages("base",errorsAreFatal=FALSE)
>
>  Error in setwd(outDir) : cannot change working directory
>
>
>
> my working driectory is:
>
>>getwd()
>
> [1] "C:/Users/jpapa/Documents"
>  In which I see R folder as well as the .rData from my last session.
>
> what does the wd have to do with the output directory? Do  I need to create
> an output directory? DO I need to setwd(outDir)?
>
> do i need to change the wd (for example to the Pogram Files directory where
> R is installed or to another directory I need to create? if so, how do I do
> this?
>
>
>
>
>
> i also noticed that i have packages in
>
> \library ?C:/Users/jpapa/Documents/R/win-library/2.15?
>
> and in library ?C:/Program Files/R/R-2.15.2/library?.
>
> Do all packages need to be in one place? If so, should they be in my
> Documents or in Program Files?
Its likely trying to write in the C:\Program Files tree but lacks
permission. Run R with Administrator permissions or re-install R
elsewhere, e.g. C:\R

-- 
Statistics & Software Consulting
GKX Group, GKX Associates Inc.
tel: 1-877-GKX-GROUP
email: ggrothendieck at gmail.com

On Wed, Feb 20, 2013 at 12:33 PM, Gabor Grothendieck
<ggrothendieck at gmail.com> wrote:
> On Wed, Feb 20, 2013 at 11:54 AM, Joanna Papakonstantinou
> <joanna.papa at gmail.com> wrote:
>> I installed R on my Windows laptop in C:\Program Files\R\R-2.15.2
>>
>> and am able to open RGUI  (640bit), see packages and run commands.
However,
>> when I test the installation and run the basic tests and all the tests
on
>> the standard and recommended packages i.e.:
>>
>>       library("tools")
>>
>>       testInstalledBasic("both")
>>
>>       testInstalledPackages("base", errorsAreFatal = FALSE)
>>
>>       testInstalledPackages("recommended", errorsAreFatal =
FALSE)
>>
>>
>>
>> I am getting errors such as:
>>
>>  > testInstalledPackages("base",errorsAreFatal=FALSE)
>>
>>  Error in setwd(outDir) : cannot change working directory
>>
>>
>>
>> my working driectory is:
>>
>>>getwd()
>>
>> [1] "C:/Users/jpapa/Documents"
>>  In which I see R folder as well as the .rData from my last session.
>>
>> what does the wd have to do with the output directory? Do  I need to
create
>> an output directory? DO I need to setwd(outDir)?
>>
>> do i need to change the wd (for example to the Pogram Files directory
where
>> R is installed or to another directory I need to create? if so, how do
I do
>> this?
>>
>>
>>
>>
>>
>> i also noticed that i have packages in
>>
>> \library ?C:/Users/jpapa/Documents/R/win-library/2.15?
>>
>> and in library ?C:/Program Files/R/R-2.15.2/library?.
>>
>> Do all packages need to be in one place? If so, should they be in my
>> Documents or in Program Files?
>
> Its likely trying to write in the C:\Program Files tree but lacks
> permission. Run R with Administrator permissions or re-install R
> elsewhere, e.g. C:\R
Also regarding your questions your setup is the standard desirable
setup (with a separate user library) and R in the \Program Files tree
so there seems nothing wrong with your library setup or how R itself
has been set up on your system.



-- 
Statistics & Software Consulting
GKX Group, GKX Associates Inc.
tel: 1-877-GKX-GROUP
email: ggrothendieck at gmail.com

> I am getting errors such as:
> > testInstalledPackages("base",errorsAreFatal=FALSE)
> 
>  Error in setwd(outDir) : cannot change working directory
Er, the first parameter in  testInstalledPackages() is the output directory
name, not the package name supplied in scope. You probably don;t have a
writeable directory called "base"

Try
 testInstalledPackages(scope="base",errorsAreFatal=FALSE)

S Ellison

*******************************************************************
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On Wed, Feb 20, 2013 at 1:08 PM, Gabor Grothendieck
<ggrothendieck at gmail.com> wrote:
> On Wed, Feb 20, 2013 at 1:01 PM, Joanna Papakonstantinou
> <joanna.papa at gmail.com> wrote:
>> I am running as administrator.
>>
>> Again, the first 2 tests worked but the 3rd is still giving me an
error:
>>> testInstalledBasic("basic")
>> running strict specific tests
>>   running code in ?eval-etc.R?
>>   comparing ?eval-etc.Rout? to ?eval-etc.Rout.save? ...[1] 1
>>> testInstalledBasic("both")
>> running strict specific tests
>>   running code in ?eval-etc.R?
>>   comparing ?eval-etc.Rout? to ?eval-etc.Rout.save? ...[1] 1
>>
>>> testInstalledPackages("base",errorsAreFatal=FALSE)
>> Error in setwd(outDir) : cannot change working directory
>>
>
> I also got errors.  There may be something wrong with the tests themselves.
Just a clarification.  The errors I was referring to was the fact that
both you and I got a result of 1 for the first too. That indicates
that the test and target differed.


-- 
Statistics & Software Consulting
GKX Group, GKX Associates Inc.
tel: 1-877-GKX-GROUP
email: ggrothendieck at gmail.com