From sdavis2 at mail.nih.gov  Tue Sep  5 05:05:42 2006
From: sdavis2 at mail.nih.gov (Sean Davis)
Date: Mon, 04 Sep 2006 23:05:42 -0400
Subject: [Rd] Unexpected source() behavior in R-devel
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Message-ID: <44FCE986.8000004@mail.nih.gov>

Seth Falcon wrote:
> Sean Davis <sdavis2 at mail.nih.gov> writes:
>   
>> Seth Falcon wrote:
>>     
>>> Peter Dalgaard <p.dalgaard at biostat.ku.dk> writes:
>>>
>>>   
>>>       
>>>> "Henrik Bengtsson" <hb at stat.berkeley.edu> writes:
>>>>
>>>>     
>>>>         
>>>>> This has been reported before on r-devel, e.g. May 9, 2006 "[Rd] Seg
>>>>> fault when installing package from bad repository".
>>>>>
>>>>> It's happening on Mac OSX when trying to download non-existing
>>>>> webpages (HTTP status 404). That's all I know (not using OSX myself).
>>>>>       
>>>>>           
>>>> It is not entirely obvious that it is the same problem, but it might be.
>>>>
>>>> This happened to me on Linux (2.3.1 on FC5), but it has only happened
>>>> that one time. I don't think I did anything particularly strange
>>>> earlier in that session.
>>>>
>>>> Of course, with 20/20 hindsight, I should have taken the core dump
>>>> option...
>>>>     
>>>>         
>>> I'm pretty sure this is the same issue and one that has been fixed in
>>> R-devel.
>>>
>>>     r38716 | ripley | 2006-07-30 00:19:35 -0700 (Sun, 30 Jul 2006) | 1 line
>>>     Changed paths:
>>>        M /trunk/src/modules/internet/internet.c
>>>         crash workaround from Seth Falcon
>>>
>>>
>>> Sean: can you try just download.file with a URL that gives 404?  Are
>>> you running an R version prior to the above commit?
>>>   
>>>       
>> Seth,
>>
>> As Peter pointed out, this looks like a simple server-side issue.
>> Here is the sessionInfo() from my original post.  And below is the
>> output of two versions of download.file.
>>     
>
> Yes, there is an issue with the BioC website (investigating) and I
> didn't mean to imply otherwise.  For now, as you discovered, use
> http://www.bioconductor.org (note the 'www').
>
> I only responded here because of the segfault you reported which most
> certainly is not a simple server-side issue :-)
>
> Did you see the segfault with a recent R or an older one?  If more
> recent, then it might be worth trying to reproduce and tracking down
> the bug.
>   
Seth,

Peter was the person who reported the segmentation fault, not I.  I
didn't experience that behavior.  And it sounds like Peter wasn't able
to reproduce it, so I'm not sure there is any bug here to be fixed.

Sean




[Rd] Unexpected source() behavior in R-devel
Sean Davis