[R] debug vs regular mode

[Zhang, Peng]

You are right. I am running Arch Linux. However, I obtained a 
segmentation directly, so didn't know where to find the bug??

 >  library("glmulti")
Loading required package: rJava
 > testdata = cbind(Y=rnorm(100), data.frame(matrix(rnorm(100*50), ncol 
= 50)))
 > glmulti(Y~(X1+X2+X3+X4+X5+X6+X7+X8+X9+X10+X11+X12+X13+X14+X15)*X16, 
data= testdata, level = 2)
Segmentation fault

Is this information "Error in .jnew("glmulti/ModelGenerator", y, 
.jarray(xc), .jarray(xq),  : java.lang.ArrayIndexOutOfBoundsException: 
15" only in Windows, or did you see it under Fedora as well?

Thank you!

Peng

BTW:

$ uname -a
Linux Precision 3.4.7-1-ARCH #1 SMP PREEMPT Sun Jul 29 22:02:56 CEST 
2012 x86_64 GNU/Linux

 > sessionInfo()
R version 2.15.1 (2012-06-22)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
  [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
  [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
  [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
  [7] LC_PAPER=C                 LC_NAME=C
  [9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

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


On 08/10/2012 09:25 AM, Henric (Nilsson) Winell wrote:
> On 2012-08-10 06:10, Zhang, Peng wrote:
>
>> Thanks to both for your reply.
>>
>> library(glmulti)
>> testdata = cbind(Y=rnorm(100), data.frame(matrix(rnorm(100*50), ncol 
>> = 50)))
>> glmulti(Y~(X1+X2+X3+X4+X5+X6+X7+X8+X9+X10+X11+X12+X13+X14+X15)*X16, data
>> = testdata, level = 2)
>>
>> This is reproducible to get a segmentation fault.
>
> There's some information missing here, notably the output from 
> 'sessionInfo()', but I guess this is under GNU/Linux.  I can confirm a 
> seg. fault under Fedora FC17 x86_64.
>
> Under Windows 7 64-bit, however, we get some further info:
>
> > library("glmulti")
> Loading required package: rJava
> > testdata = cbind(Y=rnorm(100), data.frame(matrix(rnorm(100*50), ncol 
> = 50)))
> > glmulti(Y~(X1+X2+X3+X4+X5+X6+X7+X8+X9+X10+X11+X12+X13+X14+X15)*X16, 
> data
> + = testdata, level = 2)
> Initialization...
> Error in .jnew("glmulti/ModelGenerator", y, .jarray(xc), .jarray(xq),  :
>   java.lang.ArrayIndexOutOfBoundsException: 15
> >
> > sessionInfo()
> R version 2.15.1 Patched (2012-08-06 r60178)
> Platform: x86_64-w64-mingw32/x64 (64-bit)
>
> locale:
> [1] LC_COLLATE=Swedish_Sweden.1252  LC_CTYPE=Swedish_Sweden.1252
> [3] LC_MONETARY=Swedish_Sweden.1252 LC_NUMERIC=C
> [5] LC_TIME=Swedish_Sweden.1252
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods base
>
> other attached packages:
> [1] glmulti_1.0.4 rJava_0.9-3
> >
>
> So, this doesn't seem to be a bug in R and is thus likely to need the 
> attention of the 'glmulti' package's maintainer.
>
>
> HTH,
> Henric
>
>
>
>> But I have troubles to
>> extract the exact information from this S4 class to make a simpler
>> example because of my limited knowledge on S4 class. The author of the
>> package is busy at the moment, and does not have time to look into it.
>>
>> Peng
>>
>> On 08/09/2012 10:25 PM, R. Michael Weylandt <michael.weylandt at gmail.com>
>> wrote:
>>>
>>> On Aug 9, 2012, at 9:14 PM, David Winsemius <dwinsemius at comcast.net> 
>>> wrote:
>>>
>>>> On Aug 9, 2012, at 4:56 PM, Zhang, Peng wrote:
>>>>
>>>>> Dear all,
>>>>>
>>>>> I had a R segmentation fault, and then invoked debug mode and ran 
>>>>> step
>>>>> by step.
>>>>
>>>>> 2. Why does the same function behave differently under debug and 
>>>>> regular
>>>>> mode?
>>>> I cannot help you there.
>>>>
>>> Though a reproducible segfault is certainly worth a bug report if 
>>> you can do so, in debug or regular modes.
>>>
>>> You may wish to search stackoverflow for tips on how to make a great 
>>> reproducible example in R.
>>>
>>> Michael
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>
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