Re: [Rd] r-devel fails tests for parallel

From: Kasper Daniel Hansen <kasperdanielhansen_at_gmail.com>
Date: Thu, 17 May 2012 17:48:11 -0400

I am happy to report that R-devel (r59358) passes make check on my platform.

And sorry for the complete mixup today el4/el5 and 4.1.2 vs 4.2.1

Thanks,
Kasper

On Thu, May 17, 2012 at 11:09 AM, Prof Brian Ripley <ripley_at_stats.ox.ac.uk> wrote:
> On 17/05/2012 15:48, Kasper Daniel Hansen wrote:
>>
>> 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
>
>
> But yours is 4.1.2 (Feb 2007).  Apple seems to have stuck at 4.2.1 for the
> GPL reason.
>
>
>> under GPL 2.  And (more importantly to me), it is the system compiler
>> on our cluster.
>
>
> This is getting increasingly difficult.  GCC 4.6.x and 4.7.x detect a lot of

> errors (especially C++ errors) that earlier versions did not -- and that
> means CRAN gets a fair number of submissions that we cannot compile.  And

> there have been a lot of optimization advances since 4.1.x.
>
>
>>
>> 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
>
>
>
> --
> 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



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