Displaying 20 results from an estimated 5000 matches similar to: "LAPACK libraries improperly linked"
2010 Nov 14
3
LAPACK libraries improperly linked
I am not sure if this is an R development problem or not. I am starting
with completely clean OS and and installing the latest version of R
without trying to anything special but I am having trouble with the
LAPACK library linking when I try to build packages that require them.
I thought perhaps my problem may be if interest here.
I just dumped Vista off a laptop formatted the disk and
2010 Nov 13
1
LAPACK lib problem, lme4, lastest R, Linux
I just dumped Vista off a laptop and installed Ubuntu 10.10 (latest
release) as the single operating system. I did all of the updates and
then installed emacs and ess. Next I installed R by following the the
usual instructions on the CRAN site. At this point all is working I am
now in the process of installing the packages that I normally have
installed. I am having a problem with the LAPACK
2010 May 28
2
Compiling R-2.11.0 with ATLAS-tuned BLAS and LAPACK
Hello. I am a Linux neophyte and know almost nothing ?about compiling,
so I would appreciate any help and advice y'all would care to offer.
I am trying to compile the 64 bit version of R using a tuned ATLAS and
LAPACK (ATLAS 3.9.24). I am running Ubunto 10.04 LTS (through wubi,
FWIW). The ATLAS and LAPACK files (atlas.so, f77blas.so, lapack.so,
and cblas.so) are sitting in the folder
2011 Jan 28
2
R CMD INSTALL cannot find libf77blas
I feel like Marlon Brando in "On the Waterfront" where he's told "It's
not your night, kid", except for me it has been the last two months
trying to debug memory problems. Now I can't even install an old
version of this package on a netbook running the Ubuntu 10.10 netbook
remix because it can't find the libraries libf77blas and libatlas.
I have even gone to
2010 May 14
1
Compiling R with ATLAS
Hello. I know almost nothing about Linux, so I apologize if the answer to
this is obvious.
I am trying to compile R with ATLAS (successfully compiled 3.9.24 on Ubuntu
10.04 64 bit). I configured with:
./configure --enable-R-shlib --enable-BLAS-shlib
--with-blas="-L/usr/local/atlas/lib -lf77blas -latlas"
--with-lapack="-L/usr/local/atlaslib -llapack -lcblas" --with-x
and I
2010 May 14
1
Compiling R with ATLAS
Hello. I know almost nothing about Linux, so I apologize if the answer to
this is obvious.
I am trying to compile R with ATLAS (successfully compiled 3.9.24 on Ubuntu
10.04 64 bit). I configured with:
./configure --enable-R-shlib --enable-BLAS-shlib
--with-blas="-L/usr/local/atlas/lib -lf77blas -latlas"
--with-lapack="-L/usr/local/atlaslib -llapack -lcblas" --with-x
and I
2009 Jun 26
1
can't use ATLAS or ACML | 2.9.0
So, tried again from scratch. Again, CentOS 5.3, which is essentially
RHEL 5.3.
./configure --with-blas="-L/opt/acml4.3.0/gfortran64/lib -lacml"
In config.log, get things like
configure:37199: checking for dgemm_ in -L/opt/acml4.3.0/gfortran64/lib
-lacml
configure:37230: gcc -std=gnu99 -o conftest -g -O2
-I/usr/local/include -L/usr/local/lib64 conftest.c
2006 Sep 27
1
Building R-2.3.1 for Windows with ATLAS
Ok, moved to R-devel.
I tried to build R-2.3.1. Since I intent to distribute this tuned R to
all other who have a computer like mine here at work I thought it was
best to stay with the latest stable release.
About your suggestion, I could'n find xerblas.o file. And I don't know
how to edit libf77blas.a. I tried to open it with VIM
(http://vim.sf.net/) but there was a lot of strange
2006 Sep 26
1
Building R for Windows with ATLAS
I think this is not a R-devel question. Sorry to all if I'm wrong,
please let me know.
I managed to build R successfully with the default BLAS but when I
change the MKRULES to use ATLAS BLAS and set the path to
"C:/cygwin/home/Administrador/ATLAS/lib/WinNT_ATHLONSSE2" I got the
following error message (I'm posting only the final part, there was a
lot of compilation before this):
2004 Feb 26
2
ATLAS threaded 64 bit (Opteron) - need *.so?
Using ATLAS with R is an old topic quite covered in the "R
Administration" manual (and by R's "configure" script
collection).
I still do not easily manage to build R properly on our new AMD
Opteron (2-processor).
I did work with the current Atlas 3.6.0, configured manually
(but "express" version) to build a threaded ATLAS version, and
successfully ran Atlas'
2005 Jun 03
2
using so-library involving Taucs
Dear R developers,
The trace of the hat matrix H~(n,n) is computed as follows:
tr(H) = tr(BS^-1B') = tr(S^-1B'B) := tr(X) = sum(diag(X))
with B~(n,p), S~(p,p).
Since p is of the order 10^3 but S is sparse I would like to employ
Taucs linear solver ( http://www.tau.ac.il/~stoledo/taucs/ ) on
SX = B'B.
(Further improvement by implying a looping over i=1,...,p, calling
2008 Dec 08
2
Ubuntu 8.10: Package installation fails (lf77blas problem)
I just upgraded to Ubuntu 8.10 (i386) from 8.04. After the upgrade, I ran
update.packages(.libPaths()[1]) in R to get the packages installed from source
up to date too. Unfortunately, two packages could not be updated: mclust and
mboost. In both cases, the error I got mentioned lf77blas. Here's the output for
mboost:
* Installing *source* package 'mboost' ...
** libs
gcc -std=gnu99
2000 Nov 14
2
atlas for R1.1.1 and R1.2 different?
Dear R'ers,
when I e.g. install the integrate2.2-2 package under R1.1.1 (debian2.2)
atlas is linked into the library:
Installing package `integrate' ...
libs
gcc -shared -lc -shared -o
/usr/lib/R/library/integrate/libs/integrate.so adapt.o adapt_callback.o
bsrl.o flfm.o nxprt.o symrl.o wht.o -L/usr/local/lib -lf77blas -lcblas
-latlas -lg2c -lm -L/usr/lib/gcc-lib/i386-linux/2.95.2
2008 Sep 10
0
Trouble compiling R with self-compiled LAPACK/ATLAS under Linux
Hello,
I just had a lot of trouble compiling a version of R which uses a
recently-compiled version of ATLAS and LAPACK. ATLAS and LAPACK compiled
correctly and installed fine and passed all of their checks (and yes, I did
compile them all with -fPIC as is required for R). This was my initial
configure line:
./configure --with-x --enable-threads=posix
--with-blas="-L/usr/local/lib
2004 May 03
2
R-1.9.0 won't compile on OSX (PR#6848)
Full_Name: Dan Kelley
Version: 1.9.0
OS: OSX (Darwin 7.3.0)
Submission from: (NULL) (129.173.23.36)
R-1.9.0 will not compile on Apple OSX (Darwin kernel 7.3.0). The error msg
starts as follows, and has several more errors.
gcc -dynamiclib -L/sw/lib -L/usr/local/lib -install_name
/Library/Frameworks/R.f
ramework/Versions/1.9.0/Resources/bin/libRlapack.dylib -o libRlapack.dylib
dlapa
ck0.lo
2002 Feb 14
3
R-patched and R-devel
If I configure in R-patched and R-devel, with the same options to
configure, then R-patched says
checking for ATL_xerbla in -latlas... yes
checking for cblas_dgemm in -lcblas... yes
checking for dgemm_ in -lf77blas... yes
which R-devel says
checking for ATL_xerbla in -latlas... yes
checking for cblas_dgemm in -lcblas... yes
checking for dgemm in -lf77blas... no
This is on the same computer and
2006 May 18
1
Stuck in R installation, help~~
Hi all,
I'm stuck in the installation of R.
When I run configure, I got the error:
configure: error: --with-readline=yes (default) and headers/libs are
not available
I followed one answer in some post and use this:
./configure --with-prefix=/home/user/R-2.2.1 --with-readline=no
It successfully configured but I encountered another problem while make:
gcc -shared -L/usr/local/lib64 -o
2007 Sep 11
2
building with atlas version of blas and lapack
I'd like to build R using my optimized blas and lapack libraries. It seems
know matter what I do, the configure script uses the blas supplied with the
source. My blas and lapack libraries are in /usr/local/atlas/lib. How can I
get configure to use these?
[[alternative HTML version deleted]]
2001 Jul 30
3
ATLAS
I thought I would try compiling R this time with the ATLAS libraries.
I have compiled ATLAS and I have the following libraries:
libatlas.a libf77blas.a libptcblas.a libtstatlas.a
libcblas.a liblapack.a libptf77blas.a
Is it sufficient to use ' --with-blas=libatlas.a ' when configuring or
do I need to specify any of the other libraries as well?
--
William D. McCoy
2009 Mar 26
0
Building R-alpha with ATLAS libraries?
I'm trying to build R-alpha using the ATLAS libraries as described in
the R-admin manual, section A.3.1.1 (BLAS) and A.3.2 (LAPACK). I built
ATLAS with LAPACK as described in the ATLAS documentation, and the
ATLAS version is the latest, 3.9.10. The platform is openSUSE 11.1
x86_64 with GCC 4.3.2.
"configure" is finding the ATLAS BLAS all right, but it is not finding
the ATLAS