From ripley at stats.ox.ac.uk  Thu Jul 21 11:38:58 2011
From: ripley at stats.ox.ac.uk (Prof Brian Ripley)
Date: Thu, 21 Jul 2011 10:38:58 +0100 (BST)
Subject: [Rd] [R] Problem compiling in extra/xdr
In-Reply-To: <alpine.LFD.2.02.1107200812040.1173@gannet.stats.ox.ac.uk>
References: <alpine.LNX.2.00.1107181539100.13110@waverley.Belkin>
	<alpine.LFD.2.02.1107182251020.4163@gannet.stats.ox.ac.uk>
	<alpine.DEB.2.00.1107181954150.5589@myrtle>
	<alpine.LFD.2.02.1107190631570.28269@gannet.stats.ox.ac.uk>
	<alpine.LFD.2.02.1107200812040.1173@gannet.stats.ox.ac.uk>
Message-ID: <alpine.LFD.2.02.1107211038100.22806@toucan.stats.ox.ac.uk>

On Wed, 20 Jul 2011, Prof Brian Ripley wrote:

> 1) The current R-patched should compile src/extra/xdr on 32-bit Linux 
> systems.
>
> 2) Longer-term or on a 64-bit platform the solution is to make use of 
> libtirpc: you would need both this installed (common now) and its headers 
> (unlikely).
>
> Then if you arrange for /usr/include/tirpc to be in the C include path (not 
> easy to do portably, but using C_INCLUDE_PATH will work on Linux), the tirpc 
> versions should be found.

For the record, a more portable way is described in the R-admin manual 
in 2.13.1 patched and R-devel.

> On Tue, 19 Jul 2011, Prof Brian Ripley wrote:
>
>> On Mon, 18 Jul 2011, Allin Cottrell wrote:
>> 
>>> On Mon, 18 Jul 2011, Prof Brian Ripley wrote:
>>> 
>>>> 1) R-help is the wrong list: see the posting guide.  I've moved this to 
>>>> R-devel.
>>>> 
>>>> 2) A glibc system should not be compiling in that directory.  glibc 2.14 
>>>> is rather recent and NEWS does say
>>>> 
>>>> * The RPC implementation in libc is obsoleted.  Old programs keep working
>>>>  but new programs cannot be linked with the routines in libc anymore.
>>>>  Programs in need of RPC functionality must be linked against TI-RPC.
>>>>  The TI-RPC implementation is IPv6 enabled and there are other benefits.
>>>>
>>>>  Visible changes of this change include (obviously) the inability to link
>>>>  programs using RPC functions without referencing the TI-RPC library and 
>>>> the
>>>>  removal of the RPC headers from the glibc headers.
>>>>  Implemented by Ulrich Drepper.
>>>> 
>>>> So the answer seems to be that your libc is too new.
>>> 
>>> OK, thanks. I should have remembered the info about RPC in the glibc-2.14 
>>> news. Then there will presumably be a problem building current R on 
>>> current Fedora?
>> 
>> What is 'current Fedora'?  glibc 2.14 postdates the current release, Fedora 
>> 15, which uses 2.13.   I do not know what Fedora 16 will use in several 
>> months ....
>> 
>> The main problem will be that the xdr included in R is only for platforms 
>> with 32-bit longs -- but that may be true for your i686 Linux.  It needs 
>> _X86_ defined to compile for i686: I would have expected that to be true on 
>> your platform, but am testing a cleaned-up version.  If that works it will 
>> appear in R-patched within 24 hours.
>> 
>>> 
>>>> On Mon, 18 Jul 2011, Allin Cottrell wrote:
>>>> 
>>>>> I'm building R 2.13.1 on i686-pc-linux-gnu, using gcc 4.6.1
>>>>> and with glibc 2.14.
>>>>> 
>>>>> I get this error:
>>>>> 
>>>>> In file included from xdr.c:61:0:
>>>>> ./rpc/types.h:63:14: error: conflicting types for 'malloc'
>>>>> make[4]: *** [xdr.o] Error 1
>>>>> 
>>>>> I can make the build proceed some by commenting out the declaration 
>>>>> "extern char *malloc();" in xdr/rpc/types.h,
>>>>> but then I get a slew of other errors:
>>>>> 
>>>>> xdr_float.c: In function 'xdr_float':
>>>>> xdr_float.c:119:21: error: storage size of 'is' isn't known
>>>>> xdr_float.c:120:20: error: storage size of 'vs' isn't known
>>>>> 
>>>>> and so on.
>>>>> 
>>>>> config.log is rather big to post here; I'm putting it at
>>>>> http://www.wfu.edu/~cottrell/tmp/R.config.log .
>>>>> 
>>>>> --
>>>>> Allin Cottrell
>>>>> Department of Economics
>>>>> Wake Forest University, NC
>>>>> 
>>>>> ______________________________________________
>>>>> R-help at r-project.org mailing list
>>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>>> PLEASE do read the posting guide 
>>>>> http://www.R-project.org/posting-guide.html
>>>>> and provide commented, minimal, self-contained, reproducible code.
>>>>> 
>>>> 
>>>> 
>>> 
>>> -- 
>>> Allin Cottrell
>>> Department of Economics
>>> Wake Forest University
>>> 
>> 
>> -- 
>> 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 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] Problem compiling in extra/xdr
Prof Brian Ripley