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loading lme4 fails - "function 'cholmod_l_start' not provided by package 'Matrix'"

8 messages · Megan Davies, Brian Ripley, ONKELINX, Thierry

#
Hello UseRs,

I've just tried to load the lme4 package and got the error message, "function 'cholmod_l_start' not provided by package 'Matrix'".  I downloaded the latest version of lme4 and its required packages (lattice and Matrix) as suggested in the archives and still got this message.  The FAQ and archives suggested to check the R version requirements, but I'm already using the latest available version of R, 2.8.1.  I'm using Windows XP Professional.

Thanks for any help,
Megan Davies

Megan Davies
Policy and Advice Officer, Statistician
Scottish Natural Heritage
01463 725072


 
 **********************************************************************
 This email and any files transmitted with it are confid...{{dropped:12}}
#
Dear Megan,

It looks like you don't have the latest version of the Matrix package.

HTH,

Thierry


------------------------------------------------------------------------
----
ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Research Institute for Nature
and Forest
Cel biometrie, methodologie en kwaliteitszorg / Section biometrics,
methodology and quality assurance
Gaverstraat 4
9500 Geraardsbergen
Belgium 
tel. + 32 54/436 185
Thierry.Onkelinx at inbo.be 
www.inbo.be 

To call in the statistician after the experiment is done may be no more
than asking him to perform a post-mortem examination: he may be able to
say what the experiment died of.
~ Sir Ronald Aylmer Fisher

The plural of anecdote is not data.
~ Roger Brinner

The combination of some data and an aching desire for an answer does not
ensure that a reasonable answer can be extracted from a given body of
data.
~ John Tukey

-----Oorspronkelijk bericht-----
Van: r-help-bounces at r-project.org [mailto:r-help-bounces at r-project.org]
Namens Megan Davies
Verzonden: woensdag 4 februari 2009 11:46
Aan: r-help at r-project.org
Onderwerp: [R] loading lme4 fails - "function 'cholmod_l_start'
notprovided by package 'Matrix'"

Hello UseRs,

I've just tried to load the lme4 package and got the error message,
"function 'cholmod_l_start' not provided by package 'Matrix'".  I
downloaded the latest version of lme4 and its required packages (lattice
and Matrix) as suggested in the archives and still got this message.
The FAQ and archives suggested to check the R version requirements, but
I'm already using the latest available version of R, 2.8.1.  I'm using
Windows XP Professional.

Thanks for any help,
Megan Davies

Megan Davies
Policy and Advice Officer, Statistician
Scottish Natural Heritage
01463 725072



 **********************************************************************
 This email and any files transmitted with it are
confid...{{dropped:12}}

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#
Did you update your version of Matrix?  It should be 0.99375-20 (or 
perhaps -18).  E.g. for me
R version 2.8.1 Patched (2009-02-04 r47838)
i386-pc-mingw32

locale:
LC_COLLATE=English_United Kingdom.1252;LC_CTYPE=English_United 
Kingdom.1252;LC_MONETARY=English_United 
Kingdom.1252;LC_NUMERIC=C;LC_TIME=English_United Kingdom.1252

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
[1] lme4_0.999375-28   Matrix_0.999375-20 lattice_0.17-20

loaded via a namespace (and not attached):
[1] grid_2.8.1  tools_2.8.1

worked.

R 2.9.0 will check versions when loading a package, but 2.8.1 does 
not.
On Wed, 4 Feb 2009, Megan Davies wrote:

            
and also the package version requirements.

  
    
#
Thanks Prof,

As you can see from my session information (below), I appear to be using the same version of Matrix as yourself.  However, I also notice that you're using a patched version of 2.8.1 whereas I'm not.  Could this be the difference?

sessionInfo()

R version 2.8.1 (2008-12-22) 
i386-pc-mingw32 

locale:
LC_COLLATE=English_United Kingdom.1252;LC_CTYPE=English_United Kingdom.1252;LC_MONETARY=English_United Kingdom.1252;LC_NUMERIC=C;LC_TIME=English_United Kingdom.1252

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] Matrix_0.999375-20 lattice_0.17-20   

loaded via a namespace (and not attached):
[1] grid_2.8.1  tools_2.8.1

Megan

Megan Davies
Policy and Advice Officer, Statistician
Scottish Natural Heritage
01463 725072
Did you update your version of Matrix?  It should be 0.99375-20 (or 
perhaps -18).  E.g. for me
R version 2.8.1 Patched (2009-02-04 r47838)
i386-pc-mingw32

locale:
LC_COLLATE=English_United Kingdom.1252;LC_CTYPE=English_United 
Kingdom.1252;LC_MONETARY=English_United 
Kingdom.1252;LC_NUMERIC=C;LC_TIME=English_United Kingdom.1252

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
[1] lme4_0.999375-28   Matrix_0.999375-20 lattice_0.17-20

loaded via a namespace (and not attached):
[1] grid_2.8.1  tools_2.8.1

worked.

R 2.9.0 will check versions when loading a package, but 2.8.1 does 
not.
On Wed, 4 Feb 2009, Megan Davies wrote:

            
and also the package version requirements.

  
    
#
On Wed, 4 Feb 2009, Megan Davies wrote:

            
It should not, and I just checked the original 2.8.1 to be sure.
But we don't have the lme4 version, so please re-check that.

  
    
#
Thanks again Prof,

I downloaded the latest lme4 today.  In the description file, it says, "Version: 0.999375-28".  I've just checked this against the version available on CRAN and its the same.

Megan

Megan Davies
Policy and Advice Officer, Statistician
Scottish Natural Heritage
01463 725072
On Wed, 4 Feb 2009, Megan Davies wrote:

            
It should not, and I just checked the original 2.8.1 to be sure.
But we don't have the lme4 version, so please re-check that.

  
    
#
Megan,

Try to uninstall both packages, remove them from the harddrive and then
reinstall them. That worked for me when I had a similar problem (lme4
complaining about Matrix).

HTH,

Thierry

------------------------------------------------------------------------
----
ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Research Institute for Nature
and Forest
Cel biometrie, methodologie en kwaliteitszorg / Section biometrics,
methodology and quality assurance
Gaverstraat 4
9500 Geraardsbergen
Belgium 
tel. + 32 54/436 185
Thierry.Onkelinx at inbo.be 
www.inbo.be 

To call in the statistician after the experiment is done may be no more
than asking him to perform a post-mortem examination: he may be able to
say what the experiment died of.
~ Sir Ronald Aylmer Fisher

The plural of anecdote is not data.
~ Roger Brinner

The combination of some data and an aching desire for an answer does not
ensure that a reasonable answer can be extracted from a given body of
data.
~ John Tukey

-----Oorspronkelijk bericht-----
Van: r-help-bounces at r-project.org [mailto:r-help-bounces at r-project.org]
Namens Megan Davies
Verzonden: woensdag 4 februari 2009 12:49
Aan: Prof Brian Ripley
CC: r-help at r-project.org
Onderwerp: Re: [R] loading lme4 fails - "function 'cholmod_l_start'not
providedbypackage 'Matrix'"

Thanks again Prof,

I downloaded the latest lme4 today.  In the description file, it says,
"Version: 0.999375-28".  I've just checked this against the version
available on CRAN and its the same.

Megan

Megan Davies
Policy and Advice Officer, Statistician
Scottish Natural Heritage
01463 725072
On Wed, 4 Feb 2009, Megan Davies wrote:

            
It should not, and I just checked the original 2.8.1 to be sure.
Kingdom.1252;LC_MONETARY=English_United
Kingdom.1252;LC_NUMERIC=C;LC_TIME=English_United Kingdom.1252
But we don't have the lme4 version, so please re-check that.
spam at snh.gov.uk

  
    
#
Thanks Thierry and the Prof,

Removing the files and then reloading them seems to have done the trick.  I don't understand why it worked, but it did.

Megan

Megan Davies
Policy and Advice Officer, Statistician
Scottish Natural Heritage
01463 725072
Megan,

Try to uninstall both packages, remove them from the harddrive and then
reinstall them. That worked for me when I had a similar problem (lme4
complaining about Matrix).

HTH,

Thierry

------------------------------------------------------------------------
----
ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Research Institute for Nature
and Forest
Cel biometrie, methodologie en kwaliteitszorg / Section biometrics,
methodology and quality assurance
Gaverstraat 4
9500 Geraardsbergen
Belgium 
tel. + 32 54/436 185
Thierry.Onkelinx at inbo.be 
www.inbo.be 

To call in the statistician after the experiment is done may be no more
than asking him to perform a post-mortem examination: he may be able to
say what the experiment died of.
~ Sir Ronald Aylmer Fisher

The plural of anecdote is not data.
~ Roger Brinner

The combination of some data and an aching desire for an answer does not
ensure that a reasonable answer can be extracted from a given body of
data.
~ John Tukey

-----Oorspronkelijk bericht-----
Van: r-help-bounces at r-project.org [mailto:r-help-bounces at r-project.org] 
Namens Megan Davies
Verzonden: woensdag 4 februari 2009 12:49
Aan: Prof Brian Ripley
CC: r-help at r-project.org 
Onderwerp: Re: [R] loading lme4 fails - "function 'cholmod_l_start'not
providedbypackage 'Matrix'"

Thanks again Prof,

I downloaded the latest lme4 today.  In the description file, it says,
"Version: 0.999375-28".  I've just checked this against the version
available on CRAN and its the same.

Megan

Megan Davies
Policy and Advice Officer, Statistician
Scottish Natural Heritage
01463 725072
On Wed, 4 Feb 2009, Megan Davies wrote:

            
It should not, and I just checked the original 2.8.1 to be sure.
Kingdom.1252;LC_MONETARY=English_United
Kingdom.1252;LC_NUMERIC=C;LC_TIME=English_United Kingdom.1252
But we don't have the lme4 version, so please re-check that.
spam at snh.gov.uk