[R-sig-ME] Unable to install the package glmmADMB

Wed Dec 11 18:39:20 CET 2013

Dear Ben,

thanks for your help! The results of your suggestions are the following:

1) The command  "install.packages("R2admb")"  is OK! 

install.packages("R2admb")
Installing package into ‘C:/Users/Helena Mouriño/Documents/R/win-library/3.0’
(as ‘lib’ is unspecified)
trying URL 'http://cran.ma.imperial.ac.uk/bin/windows/contrib/3.0/R2admb_0.7.10.zip'
Content type 'application/zip' length 419933 bytes (410 Kb)
opened URL
downloaded 410 Kb

package ‘R2admb’ successfully unpacked and MD5 sums checked

2) But.... the computer doesn't like the command  "install.packages("R2admb",type="source")"....... and the same happens with  "install.packages("plotrix",type="source")?"

In both cases, the computer changes the "n tilde" to "q"... and I don't understand why...

Installing package into ‘C:/Users/Helena Mouriño/Documents/R/win-library/3.0’
(as ‘lib’ is unspecified)
trying URL 'http://cran.ma.imperial.ac.uk/src/contrib/R2admb_0.7.10.tar.gz'
Content type 'application/x-gzip' length 624522 bytes (609 Kb)
opened URL
downloaded 609 Kb

* installing *source* package 'R2admb' ...
** package 'R2admb' successfully unpacked and MD5 sums checked
Warning in file(file, ifelse(append, "a", "w")) :
  cannot open file 'C:/Users/Helena Mouriqo/Documents/R/win-library/3.0/R2admb/DESCRIPTION': No such file or directory
Error in file(file, ifelse(append, "a", "w")) : 
  cannot open the connection
ERROR: installing package DESCRIPTION failed for package 'R2admb'
* removing 'C:/Users/Helena Mouriño/Documents/R/win-library/3.0/R2admb'
* restoring previous 'C:/Users/Helena Mouriño/Documents/R/win-library/3.0/R2admb'

The downloaded source packages are in
        ‘C:\Users\Helena Mouriño\AppData\Local\Temp\RtmpQlj4G7\downloaded_packages’
Warning messages:
1: running command '"C:/PROGRA~1/R/R-30~1.2/bin/x64/R" CMD INSTALL -l "C:\Users\Helena Mouriño\Documents\R\win-library\3.0" C:\Users\HELENA~1\AppData\Local\Temp\RtmpQlj4G7/downloaded_packages/R2admb_0.7.10.tar.gz' had status 1 
2: In install.packages("R2admb", type = "source") :
  installation of package ‘R2admb’ had non-zero exit status

install.packages("plotrix",type="source")
Installing package into ‘C:/Users/Helena Mouriño/Documents/R/win-library/3.0’
(as ‘lib’ is unspecified)
trying URL 'http://cran.ma.imperial.ac.uk/src/contrib/plotrix_3.5-2.tar.gz'
Content type 'application/x-gzip' length 217258 bytes (212 Kb)
opened URL
downloaded 212 Kb

* installing *source* package 'plotrix' ...
** package 'plotrix' successfully unpacked and MD5 sums checked
Warning in file(file, ifelse(append, "a", "w")) :
  cannot open file 'C:/Users/Helena Mouriqo/Documents/R/win-library/3.0/plotrix/DESCRIPTION': No such file or directory
Error in file(file, ifelse(append, "a", "w")) : 
  cannot open the connection
ERROR: installing package DESCRIPTION failed for package 'plotrix'
* removing 'C:/Users/Helena Mouriño/Documents/R/win-library/3.0/plotrix'

The downloaded source packages are in
        ‘C:\Users\Helena Mouriño\AppData\Local\Temp\RtmpQlj4G7\downloaded_packages’
Warning messages:
1: running command '"C:/PROGRA~1/R/R-30~1.2/bin/x64/R" CMD INSTALL -l "C:\Users\Helena Mouriño\Documents\R\win-library\3.0" C:\Users\HELENA~1\AppData\Local\Temp\RtmpQlj4G7/downloaded_packages/plotrix_3.5-2.tar.gz' had status 1 
2: In install.packages("plotrix", type = "source") :
  installation of package ‘plotrix’ had non-zero exit status

Helena.

________________________________________
De: Ben Bolker [bbolker at gmail.com]
Enviado: quarta-feira, 11 de Dezembro de 2013 16:35
Para: Maria Helena Mourino Silva Nunes; r-sig-mixed-models
Assunto: Re: [R-sig-ME] Unable to install the package glmmADMB

On 13-12-11 08:08 AM, Maria Helena Mourino Silva Nunes wrote:
> Dear all,
>

> I've tried to install the package glmmADMB, but it didn't work. I
> followed the installation steps of the web page
> http://glmmadmb.r-forge.r-project.org/, but I've got the  messages
> reported below. I might stress that I entered into R ( R version
> 3.0.2) as administrator because I clicked in the option "Run as
> administrator". What can I do to handle this problem?
>

> Thanks in advanced.
>
> Regards, Helena.
>
> 1)
>>
>> install.packages("glmmADMB",
>> repos="http://r-forge.r-project.org",type="source") Installing
>> package into ‘C:/Users/Helena Mouriño/Documents/R/win-library/3.0’
>> (as ‘lib’ is unspecified) Warning message: package ‘glmmADMB’ is
>> not available (for R version 3.0.2)

  This is more or less as expected, for now -- I have to do some work to
get glmmADMB building on r-forge ...

>>
>> 2) install.packages("glmmADMB", +
>> repos=c("http://glmmadmb.r-forge.r-project.org/repos",
>> getOption("repos")),type="source") Installing package into
>> ‘C:/Users/Helena Mouriño/Documents/R/win-library/3.0’ (as ‘lib’ is
>> unspecified) also installing the dependency ‘R2admb’
>>
>> trying URL
>> 'http://cran.ma.imperial.ac.uk/src/contrib/R2admb_0.7.10.tar.gz'
>> Content type 'application/x-gzip' length 624522 bytes (609 Kb)
>> opened URL downloaded 609 Kb
>>
>> trying URL
>> 'http://glmmadmb.r-forge.r-project.org/repos/src/contrib/glmmADMB_0.7.7.tar.gz'
>>
>>
>> Content type 'application/x-gzip' length 10358095 bytes (9.9 Mb)
>> opened URL downloaded 9.9 Mb

 So far so good.

>>
>> * installing *source* package 'R2admb' ...
>> ** package 'R2admb'
>> successfully unpacked and MD5 sums checked

  So far so good.

>> Warning in file(file,
>> ifelse(append, "a", "w")) : cannot open file 'C:/Users/Helena
>> Mouriqo/Documents/R/win-library/3.0/R2admb/DESCRIPTION': No such
>> file or directory Error in file(file, ifelse(append, "a", "w")) :
>> cannot open the connection
>> ERROR: installing package DESCRIPTION
>> failed for package 'R2admb'

  This is where things go wrong. It's a bit bizarre that the
error message lists the path as

'C:/Users/Helena Mouriqo/Documents/...'

while elsewhere in the output it's listed as

‘C:/Users/Helena Mouriño/Documents/...'

  Based on the error message I'm *guessing* that this is happening in
the read.dcf() function, as called from install.packages(), and that
there's something funny going on with the special character in your file
path getting mangled.

What happens if you just

install.packages("R2admb")

?

Does

install.packages("R2admb",type="source")

give you the same error?  What about

install.packages("plotrix",type="source")?
(this is just picking an arbitrary, harmless package to try)

  What do you get if you type traceback() after you receive the
error above?

  Ben Bolker

>> * removing 'C:/Users/Helena
>> Mouriño/Documents/R/win-library/3.0/R2admb' ERROR: dependency
>> 'R2admb' is not available for package 'glmmADMB' * removing
>> 'C:/Users/Helena Mouriño/Documents/R/win-library/3.0/glmmADMB'
>>
>> The downloaded source packages are in ‘C:\Users\Helena
>> Mouriño\AppData\Local\Temp\RtmpMzOIeU\downloaded_packages’ Warning
>> messages: 1: running command '"C:/PROGRA~1/R/R-30~1.2/bin/x64/R"
>> CMD INSTALL -l "C:\Users\Helena
>> Mouriño\Documents\R\win-library\3.0"
>> C:\Users\HELENA~1\AppData\Local\Temp\RtmpMzOIeU/downloaded_packages/R2admb_0.7.10.tar.gz'
>> had status 1 2: In install.packages("glmmADMB", repos =
>> c("http://glmmadmb.r-forge.r-project.org/repos",  : installation of
>> package ‘R2admb’ had non-zero exit status 3: running command
>> '"C:/PROGRA~1/R/R-30~1.2/bin/x64/R" CMD INSTALL -l "C:\Users\Helena
>> Mouriño\Documents\R\win-library\3.0"
>> C:\Users\HELENA~1\AppData\Local\Temp\RtmpMzOIeU/downloaded_packages/glmmADMB_0.7.7.tar.gz'
>> had status 1 4: In install.packages("glmmADMB", repos =
>> c("http://glmmadmb.r-forge.r-project.org/repos",  : installation of
>> package ‘glmmADMB’ had non-zero exit status
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