From htl10 at users.sourceforge.net  Fri Apr  8 07:09:49 2011
From: htl10 at users.sourceforge.net (Hin-Tak Leung)
Date: Fri, 8 Apr 2011 06:09:49 +0100 (BST)
Subject: [Rd] core Matrix package segfaulted on R CMD check --use-gct
In-Reply-To: <73B98426-75BC-404C-922B-549EEB6DCF94@gmail.com>
Message-ID: <191025.59368.qm@web29508.mail.ird.yahoo.com>

--- On Fri, 8/4/11, peter dalgaard <pdalgd at gmail.com> wrote:

> On Apr 7, 2011, at 23:57 , Hin-Tak Leung wrote:
> 
> > 
> > Oh, I am tracking both R and Matrix via git-svn and
> retrieves all revisions to all branches daily (or at least,
> regularly). I.e. R svn head.? 2.13.0 only forked off
> recently and most of the trunk<->2.13.0rc differences
> are so far mostly documentation-related. I could switch to
> track R 2.13.x branch if you insist.
> > 
> 
> Please do. It's the branch that is supposed to stabilize
> during prerelease times.
> 
> Also, please check the prerelease tarballs, errors in "make
> dist" are not caught when building from svn.

Just so that there is no doubt, here is the recipe with the latest rc tar ball, cutting-and-pasting from my command history:

wget -m http://cran.r-project.org/src/base-prerelease/R-rc_2011-04-07_r55373.tar.gz
cd /tmp
tar -zxpvf ~/cran.r-project.org/src/base-prerelease/R-rc_2011-04-07_r55373.tar.gz
cd R-rc/
export DEFS='-DUSE_TYPE_CHECKING_STRICT -DR_MEMORY_PROFILING' ; ./configure  --enable-memory-profiling --enable-strict-barrier --enable-byte-compiled-packages --with-valgrind-instrumentation=2  ; make
cd src/library/
cd Recommended/
../../../bin/R CMD check --use-gct Matrix_0.999375-49.tar.gz

------------------------------
...
Running examples in ?Matrix-Ex.R? failed
The error occurred in:


R version 2.13.0 RC (2011-04-07 r55373)
Copyright (C) 2011 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
Platform: x86_64-unknown-linux-gnu (64-bit)
...
> pkgname <- "Matrix"
> source(file.path(R.home("share"), "R", "examples-header.R"))
> gctorture(TRUE)
> options(warn = 1)
> library('Matrix')
Loading required package: lattice
Error in regexpr("package:", envName, fixed = TRUE) : 
  unprotected object (0x3be2ba8) encountered (was INTSXP)
Error: package/namespace load failed for 'Matrix'
Execution halted
-------------------------




[Rd] core Matrix package segfaulted on R CMD check --use-gct
Hin-Tak Leung