So your system has a broken BLAS and you need to use the builtin one.
On Mon, 4 Oct 2010, it-r-de...@ml.epigenomics.com wrote:
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.bur...@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)
--
Brian D. Ripley, rip...@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
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