[R] package installtion

[Scott Raynaud]

OK, I think I see the problem.  Rather than setting method="nAGQ" I need nAGQ=1.  Doing so throws the following error:

"Warning messages:
1: glm.fit: algorithm did not converge 
2: In mer_finalize(ans) : gr cannot be computed at initial par (65)
Error in diag(vcov(fitmodel)) : 
  error in evaluating the argument 'x' in selecting a method for function 'diag': Error in asMethod(object) : matrix is not symmetric [1,2]"

I need some help interpreting and debugging this.  One thing that I suspect is that there is a column of zeroes in the design matrix, but I'm not sure.  Any other possibilities here and how can I diagnose?

----- Original Message -----
From: Scott Raynaud <scott.raynaud at yahoo.com>
To: "r-help at r-project.org" <r-help at r-project.org>
Cc: 
Sent: Tuesday, November 15, 2011 2:11 PM
Subject: Re: package installtion

Never mind-I fixed it.

My script is throwing the following error: 

"Error in glmer(formula = modelformula, data = data, family = binomial(link = logit),  : 
  Argument ‘method’ is deprecated.
Use ‘nAGQ’ to choose AGQ.  PQL is not available."

I remember hearing somewhere that PQL is no longer available on lme4 but I have AGQ specified.    

Here's the line that fits my model:

(fitmodel <- lmer(modelformula,data,family=binomial(link=logit),method="AGQ"))

If I change it to nAGQ I still get an error.

Any ideas as to what's going on?
 
----- Original Message -----
From: Scott Raynaud <scott.raynaud at yahoo.com>
To: "r-help at r-project.org" <r-help at r-project.org>
Cc: 
Sent: Tuesday, November 15, 2011 1:50 PM
Subject: package installtion

I'm getting the following error in a script: "Error: could not find function "lmer."    I'm wondering of my lme4 package is installed incorrectly.  Can someone tell me the installation procedure?  I looked at the support docs but couldn't translate that into anything that would work.