Re: [Rd] New package test results available

From: Martin Elff <>
Date: Tue, 10 Feb 2009 10:49:46 +0100

Dear Professor Ripley,

as you pointed out, package 'memisc' caused a compilation error with the Sun Studio compiler because of gcc-specific compilation flags. The obvious reason was that the 'src' directory had a 'Makevars' file containing "PKGC_FLAGS="-Wall -pedantic".

In the new revision of my package uploaded this weekend, the Makevars file is removed, but nevertheless according to the protocol of the automatic package checking with Sun Studio (of 2009-02-10 05:53:33), a compilation error occurs because of the gcc-specific compilation options "-Wall -pedantic". I checked the CRAN-version of the package for any instances of Makefiles or Makevar files, but none is present. Also I grepped my sources for any instance of "-Wall", with negative results. So I wonder what I should do to avoid Sun Studio errors caused by these options.

Any hint is appreciated.

Martin Elff

On Saturday 07 February 2009 (08:22:49), Prof Brian Ripley wrote:
> We've added a column at
> of test results using the Sun Studio compiler: it is intended that
> these will be updated weekly.
> The Sun Studio compiler is that used on Solaris: these runs were on
> the Linux version. All the other platforms are using gcc 4, so this
> provides an opportunity for checking for use of gcc-specific features
> and also standards conformance (the Sun compilers have a long-time
> reputation for close conformance to the language standards).
> There are known problems where packages use C++ or JNI interfaces
> (e.g. rgdal and EBImage) as the libraries and JVM were compiled under
> gcc's conventions (even though a Sun JVMi is used). About half the
> packages using rJava segfault, which seems to a JNI issue.
> Some packages use gcc-specific compiler flags:
> LogConcDEAD Matching amap geometry memisc taskPR
> but the vast majority of the errors reported are C++ errors. One
> class that may not be immediately obvious is the use of C headers in
> C++: you are supposed to write e.g.
> #includd <cmath>
> #include <math.h>
> Symptoms of this can be seen for packages
> BayesTree EMCC MCMCfglmm MarkedPointProcess Matching Matrix
> RQuantlib RandomFields Rcpp SoPhy compHclust dpmix igraph minet
> mixer modeest monomvm multic pcaPP rgenoud robfilter segclust
> simecol subselec

Dr. Martin Elff
LSPWIVS (Prof. van Deth)
Department of Social Sciences
University of Mannheim
A5, 6, A 328
68131 Mannheim

Phone: +49-621-181-2093
Fax: +49-621-181-2099
Web: mailing list Received on Tue 10 Feb 2009 - 08:52:01 GMT

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