From it-r-devel at ml.epigenomics.com  Mon Oct  4 14:50:57 2010
From: it-r-devel at ml.epigenomics.com (it-r-devel at ml.epigenomics.com)
Date: Mon, 04 Oct 2010 14:50:57 +0200
Subject: [Rd] R 2.12.0 beta (r53110) fails make check on Ubuntu hardy
Message-ID: <i8cijh$s9u$1@perl.epigenomics.epi>


Hi!

we observe a failing make check for reg-tests-1b.R with r53110 and since at least r53056
with the failing lines being

[...]
> ## found from fallback test in slam 0.1-15
> x <- matrix(c(1, 0, NA, 1), 2, 2)
> y <- matrix(c(1, 0, 0, 2, 1, 0), 3, 2)
> (z <- tcrossprod(x, y))
     [,1] [,2] [,3]
[1,]   NA   NA    0
[2,]    2    1    0
> stopifnot(identical(z, x %*% t(y)))
Error: identical(z, x %*% t(y)) is not TRUE
Execution halted


In a fresh R session the results are
x %*% t(y)
     [,1] [,2] [,3]
[1,]   NA   NA   NA
[2,]    2    1    0

(z <- tcrossprod(x, y))
     [,1] [,2] [,3]
[1,]   NA   NA    0
[2,]    2    1    0

Regards,

  Matthias



System:
Ubuntu 8.05 hardy heron

uname -a
Linux bednorz 2.6.27.10-p4-server #1 SMP Fri Jan 9 10:03:30 CET 2009 i686 GNU/Linux

gcc --version
gcc (GCC) 4.2.4 (Ubuntu 4.2.4-1ubuntu4)


Complete log reg-tests-1b.Rout.fail attached.

configure ares used:
 --prefix=/mnt/local/R/hardy/R-2.12.0-rc_101001r53110 --enable-R-profiling=yes
--enable-R-shlib=yes --enable-BLAS-shlib=yes --with-blas=yes --with-lapack=no
--with-readline=yes --with-tcltk=/usr/include/tcl8.4
--with-tcl-config=/usr/lib/tcl8.4/tclConfig.sh --with-tk-config=/usr/lib/tk8.4/tkConfig.sh
--enable-shared=yes --enable-prebuilt-html --with-pic=yes --with-x=yes --with-cairo=yes
--with-recommended-packages=yes  --with-libpng=yes --with-jpeglib=yes
--with-system-zlib=yes --with-system-bzlib=yes  --with-system-pcre=no
--with-valgrind-instrumentation=2 --enable-memory-profiling=yes

configure output:

R is now configured for i686-pc-linux-gnu

  Source directory:          .
  Installation directory:    /mnt/local/R/hardy/R-2.12.0-rc_101001r53110

  C compiler:                /usr/bin/gcc-4.2 -std=gnu99  -g -O2
  Fortran 77 compiler:       /usr/bin/gfortran-4.2  -g -O2

  C++ compiler:              /usr/bin/g++-4.2  -g -O2
  Fortran 90/95 compiler:    /usr/bin/gfortran-4.2 -g -O2
  Obj-C compiler:	     /usr/bin/gcc-4.2 -g -O2

  Interfaces supported:      X11, tcltk
  External libraries:        readline, BLAS(generic), ICU
  Additional capabilities:   PNG, JPEG, TIFF, NLS, cairo
  Options enabled:           shared R library, shared BLAS, R profiling, memory profiling,
Java, static HTML

  Recommended packages:      yes


-- 
Matthias Burger                        Project Manager, Assay Transfer
Epigenomics AG     Kleine Praesidentenstr. 1     10178 Berlin, Germany
phone:+49-30-24345-0                              fax:+49-30-24345-555
http://www.epigenomics.com             matthias.burger at epigenomics.com
--
Epigenomics AG Berlin             Amtsgericht Charlottenburg HRB 75861
Vorstand:                             Geert Nygaard (CEO/Vorsitzender)
                                              Oliver Schacht PhD (CFO)
Aufsichtsrat:     Prof. Dr. Dr. hc. Rolf Krebs (Chairman/Vorsitzender)
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[Rd] R 2.12.0 beta (r53110) fails make check on Ubuntu hardy
it-r-devel at ml.epigenomics.com