From kasperdanielhansen at gmail.com  Thu May 17 16:48:04 2012
From: kasperdanielhansen at gmail.com (Kasper Daniel Hansen)
Date: Thu, 17 May 2012 10:48:04 -0400
Subject: [Rd] r-devel fails tests for parallel
In-Reply-To: <4FB4F748.6080800@stats.ox.ac.uk>
References: <CAC2h7uufm-iL4PHv9HToCqHyFk1HOSZz+s00JQmoY_juuu7rkA@mail.gmail.com>
	<4FB4F748.6080800@stats.ox.ac.uk>
Message-ID: <CAC2h7usyprG4XQfRnr1ucingmdj3ezPxtwz2t+DodT1sAh3Ggw@mail.gmail.com>

On Thu, May 17, 2012 at 9:04 AM, Prof Brian Ripley
<ripley at stats.ox.ac.uk> wrote:
> Seems your ancient OS (that compiler has a 6-year-old copyright date) has a
> broken implementation of affinity with CPU_ZERO but not CPU_COUNT.
>
> I've added some checks which should catch this.

Thanks a lot.

And I apologize for mixing up the red hat version.  I am using EL 5.4.

FInally, while GCC 4.2 is pretty old, it is still the newest release
under GPL 2.  And (more importantly to me), it is the system compiler
on our cluster.

Kasper

>
>
> On 17/05/2012 13:52, Kasper Daniel Hansen wrote:
>>
>> I have been building R-devel daily for years. ?In the last week or so,
>> R-devel has failed make check with the error in
>> ? tests/Examples/parallel-Ex.R
>>
>> The specific error is
>>>
>>> pkgname<- "parallel"
>>> source(file.path(R.home("share"), "R", "examples-header.R"))
>>> options(warn = 1)
>>> library('parallel')
>>
>> Error in dyn.load(file, DLLpath = DLLpath, ...) :
>> ? unable to load shared object
>>
>> '/hpscc/usr/local/gcc-4.1.2/build/R/R-devel-build/library/parallel/libs/parallel.so':
>>
>> /hpscc/usr/local/gcc-4.1.2/build/R/R-devel-build/library/parallel/libs/parallel.so:
>> undefined symbol: CPU_COUNT
>> Error: package/namespace load failed for ?parallel?
>> Execution halted
>>
>> I am building on Red Hat Enterprise Linux version 4, using
>
>
> Hmm, it says .el5: RHEL5 is ancient but RHEL4 is pre-historic!
>
>> # gcc --version
>> gcc (GCC) 4.1.2 20080704 (Red Hat 4.1.2-51)
>> Copyright (C) 2006 Free Software Foundation, Inc.
>> This is free software; see the source for copying conditions. ?There is NO
>> warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR
>> PURPOSE.
>>
>> The specifics of the distro is
>> # cat /proc/version
>> Linux version 2.6.18-274.12.1.el5
>> (mockbuild at x86-001.build.bos.redhat.com) (gcc version 4.1.2 20080704
>> (Red Hat 4.1.2-51)) #1 SMP Tue Nov 8 21:37:35 EST 2011
>>
>> I am happy to provide any additional information
>>
>> Best,
>> Kasper
>>
>> ______________________________________________
>> R-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/r-devel
>
>
>
> --
> Brian D. Ripley, ? ? ? ? ? ? ? ? ?ripley at stats.ox.ac.uk
> Professor of Applied Statistics, ?http://www.stats.ox.ac.uk/~ripley/
> University of Oxford, ? ? ? ? ? ? Tel: ?+44 1865 272861 (self)
> 1 South Parks Road, ? ? ? ? ? ? ? ? ? ? +44 1865 272866 (PA)
> Oxford OX1 3TG, UK ? ? ? ? ? ? ? ?Fax: ?+44 1865 272595



[Rd] r-devel fails tests for parallel
Kasper Daniel Hansen