From kasperdanielhansen at gmail.com  Thu Dec  6 16:38:01 2012
From: kasperdanielhansen at gmail.com (Kasper Daniel Hansen)
Date: Thu, 6 Dec 2012 10:38:01 -0500
Subject: [Rd] Compilation failure on Solaris: any advice?
In-Reply-To: <20672.46577.43959.564387@stat.math.ethz.ch>
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	<20672.46577.43959.564387@stat.math.ethz.ch>
Message-ID: <CAC2h7usePq1EKKuZVHCYotQf21qodOOoO8vZQpyU9qnUXQCHHg@mail.gmail.com>

On Thu, Dec 6, 2012 at 10:12 AM, Martin Maechler
<maechler at stat.math.ethz.ch> wrote:
>>>>>> elijah wright <elw at stderr.org>
>>>>>>     on Wed, 5 Dec 2012 14:23:51 -0600 writes:
>
>     > Is that a build with "good old" Studio or a build with a recent GCC?
>     > I don't have any direct comments that would be helpful to you - but let me
>     > know if you need a place to do some test builds and try to figure it out.
>     > I can certainly help you with that.
>
>     > [Are more Solaris-esque build slaves needed?  Someone give a shout if so...
>     > we can sponsor some infrastructure there.]
>
> `` shout! ''
>
> as long we (R community at large "in principle", de facto,
>             AFAIK, Prof Brian Ripley)
> can have a Solaris testbed for CRAN which is reflected in the
> CRAN package check, it would be really great if someone provided
> a "Solaris-builder" server similar to the
> win-builder.r-project.org one that Uwe (and his Depaertment/
> University) provides.

Getting a solaris-builder would be awesome.  My understanding is that
people both use a Solaris supplied compiler as well as GCC regularly
on this platform (ok, I don't fully know what I am talking about here,
since I don't have access to Solaris), and having one builder for each
compiler would be awesome.  (As would a linux machine with an intel
compiler, now that I am dreaming).

Additionally, right now I personally have a need for a login to a
Solaris machine. Some build problems with Rgraphviz has been reported
on Solaris and there is no way I can fix them without command line
access.

Best,
Kasper Daniel Hansen
Assistant Professor
McKusick-Nathans Institute of Genetic Medicine
Department of Biostatistics
Johns Hopkins University
Website: http://www.biostat.jhsph.edu/~khansen




> Martin
>
>     > --elijah
>     > (@Joyent)
>
>
>
>     > On Mon, Dec 3, 2012 at 11:28 AM, Jon Clayden <jon.clayden at gmail.com> wrote:
>
>     >> Dear all,
>     >>
>     >> The current version of my RNiftyReg package is failing to compile on CRAN's
>     >> Solaris testbed, but I don't have access to a Solaris system to debug on,
>     >> and Googling the error hasn't been very helpful. The error is
>     >>
>     >> CC -library=stlport4 -I/home/ripley/R/cc/include -DNDEBUG -DNDEBUG
>     >> -DRNIFTYREG -I/usr/local/include    -KPIC  -O -xlibmil -xtarget=native
>     >> -nofstore  -c niftyreg.cpp -o niftyreg.o
>     >> "_reg_f3d_sym.cpp", line 25: Error: reg_f3d may not have a type qualifier.
>     >> "niftyreg.cpp", line 527:     Where: While instantiating
>     >> "reg_f3d_sym<double>::reg_f3d_sym(int, int)".
>     >> "niftyreg.cpp", line 527:     Where: Instantiated from non-template code.
>     >> "_reg_f3d_sym.cpp", line 26: Error: reg_f3d<T> cannot be initialized
>     >> in a constructor.
>     >> "niftyreg.cpp", line 527:     Where: While instantiating
>     >> "reg_f3d_sym<double>::reg_f3d_sym(int, int)".
>     >> "niftyreg.cpp", line 527:     Where: Instantiated from non-template code.
>     >> "_reg_f3d_sym.cpp", line 26: Error: Could not find
>     >> reg_f3d<double>::reg_f3d() to initialize base class.
>     >> "niftyreg.cpp", line 527:     Where: While instantiating
>     >> "reg_f3d_sym<double>::reg_f3d_sym(int, int)".
>     >> "niftyreg.cpp", line 527:     Where: Instantiated from non-template code.
>     >> 3 Error(s) detected.
>     >> *** Error code 2
>     >> make: Fatal error: Command failed for target `niftyreg.o'
>     >>
>     >>
>     >> (Full log at [1].) The relevant part of the source is a C++ class
>     >> constructor, part of the library that my package interfaces to:
>     >>
>     >> template <class T>
>     >> reg_f3d_sym<T>::reg_f3d_sym(int refTimePoint,int floTimePoint)
>     >> :reg_f3d<T>::reg_f3d(refTimePoint,floTimePoint)
>     >> {
>     this-> executableName=(char *)"NiftyReg F3D SYM";
>     >>
>     this-> backwardControlPointGrid=NULL;
>     this-> backwardWarped=NULL;
>     this-> backwardWarpedGradientImage=NULL;
>     this-> backwardDeformationFieldImage=NULL;
>     this-> backwardVoxelBasedMeasureGradientImage=NULL;
>     this-> backwardNodeBasedGradientImage=NULL;
>     >>
>     this-> backwardBestControlPointPosition=NULL;
>     this-> backwardConjugateG=NULL;
>     this-> backwardConjugateH=NULL;
>     >>
>     this-> backwardProbaJointHistogram=NULL;
>     this-> backwardLogJointHistogram=NULL;
>     >>
>     this-> floatingMaskImage=NULL;
>     this-> currentFloatingMask=NULL;
>     this-> floatingMaskPyramid=NULL;
>     this-> backwardActiveVoxelNumber=NULL;
>     >>
>     this-> inverseConsistencyWeight=0.1;
>     >>
>     >> #ifndef NDEBUG
>     >> printf("[NiftyReg DEBUG] reg_f3d_sym constructor called\n");
>     >> #endif
>     >> }
>     >>
>     >> The error does not occur on any Windows, Linux or OS X system which I have
>     >> access to, so this would seem to be an issue relating to the Solaris
>     >> compiler toolchain in particular. Can anyone shed any light on it, please?
>     >>
>     >> Thanks in advance,
>     >> Jon
>     >>
>     >> --
>     >> [1]
>     >>
>     >> http://www.r-project.org/nosvn/R.check/r-patched-solaris-x86/RNiftyReg-00install.html
>     >>
>
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[Rd] Compilation failure on Solaris: any advice?
Kasper Daniel Hansen