[R] Bootstrap (bootSem) causes R to crash

[Eric Green]

Hi everyone, 

I'd like to report a similar experience. When I attempt to run the first 
CFA example in bootSem(), specifically the line:

system.time(boot.cnes <- bootSem(sem.cnes, R=100, Cov=hcor, data=CNES))


R crashes and I get a notice about X11. I copied my sessionInfo() below. 

Any ideas for a workaround?

Thanks
Eric


R version 3.0.1 (2013-05-16)
Platform: x86_64-apple-darwin10.8.0 (64-bit)

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

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

other attached packages:
 [1] polycor_0.7-8    sfsmisc_1.0-23   mvtnorm_0.9-9996 corrgram_1.5    
 [5] seriation_1.0-11 colorspace_1.2-3 gclus_1.3.1      TSP_1.0-8       
 [9] cluster_1.14.4   GGally_0.4.4     reshape_0.8.4    plyr_1.8        
[13] ggplot2_0.9.3.1  xtable_1.7-1     xlsx_0.5.1       xlsxjars_0.5.0  
[17] rJava_0.9-4      nFactors_2.3.3   lattice_0.20-23  boot_1.3-9      
[21] sem_3.1-3        matrixcalc_1.0-3 MASS_7.3-29      psych_1.3.10    
[25] foreign_0.8-55   knitr_1.5        formatR_0.9     

loaded via a namespace (and not attached):
 [1] dichromat_2.0-0    digest_0.6.3       evaluate_0.5       gtable_0.1.2 
     
 [5] labeling_0.2       munsell_0.4.2      proto_0.3-10       
RColorBrewer_1.0-5
 [9] reshape2_1.2.2     scales_0.2.3       stringr_0.6.2      tools_3.0.1   
    


On Wednesday, March 20, 2013 1:43:26 PM UTC-4, John Fox wrote:
>
> Dear pedtroabq, 
>
> I think that it's impossible to know from the information given why R 
> crashes when bootSem() is called a second time after it worked the first 
> time (which is how I interpret the message that you reference). I don't 
> think that bootSem() is doing anything unusual -- it simply refits the 
> model 
> to bootstrap samples and uses try() to intercept model-fitting failures on 
> the bootstrap replications. 
>
> Also, although it's not relevant to the problem, it's odd not to store the 
> object returned by bootSem() in a variable, which is perhaps what the 
> author 
> of the message means by (2). 
>
> bootSem() does use a Tk progress bar, and I suppose that it's possible 
> that 
> Tcl/Tk for X-Windows or X-Windows itself isn't installed, and that's the 
> source of the error, but I read (1) as implying that the first call to 
> bootSem() worked. bootSem() only uses a Tk progress var if tcltk is 
> loaded, 
> but I don't believe on the Mac that this insures that the tcltk package 
> actually works. If this is indeed the source of the problem, I should 
> probably avoid the Tk progress bar under Mac OS X because of the 
> inadequate 
> support out of the box for the tcltk package on that platform. 
>
> Best, 
>  John 
>
> ----------------------------------------------- 
> John Fox 
> Senator McMaster Professor of Social Statistics 
> Department of Sociology 
> McMaster University 
> Hamilton, Ontario, Canada 
>
>
>
>
>
> > -----Original Message----- 
> > From: r-help-... at r-project.org <javascript:> [mailto:r-help-... at r-<javascript:> 
> > project.org] On Behalf Of pedroabg 
> > Sent: Wednesday, March 20, 2013 1:18 PM 
> > To: r-h... at r-project.org <javascript:> 
> > Subject: Re: [R] Bootstrap (bootSem) causes R to crash 
> > 
> > I think we didn't receive this on the list. 
> > 
> > 
> > 
> > -- 
> > View this message in context: http://r.789695.n4.nabble.com/Bootstrap- 
> > bootSem-causes-R-to-crash-tp4661900p4661944.html 
> > Sent from the R help mailing list archive at Nabble.com. 
> > 
> > ______________________________________________ 
> > R-h... at r-project.org <javascript:> mailing list 
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> > PLEASE do read the posting guide http://www.R-project.org/posting- 
> > guide.html 
> > and provide commented, minimal, self-contained, reproducible code. 
>
> ______________________________________________ 
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> PLEASE do read the posting guide 
> http://www.R-project.org/posting-guide.html 
> and provide commented, minimal, self-contained, reproducible code. 
>