r-devel fails tests for parallel

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

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--
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

r-devel fails tests for parallel

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