Thanks for your reply. I just created a link to
/usr/local/lib/R/lib/libRlapack.so in /usr/local/lib. It works now.
I'm just curious, is this the "right" way to do it? Is there a better way?
Thanks,
Aman
On Tue, Oct 19, 2010 at 5:26 PM, Laurent Gautier <lgaut...@gmail.com> wrote:
> On 19/10/10 23:09, Aman Thakral wrote:
>
> Hi,
>
> I'm having some issues with LAPACK. Here is the result of python -m
> "rpy2.tests"
>
> rpy2 version 2.1.7
>
> ..............................................................................................................................getbuffer
> .getbuffer
>
> /usr/local/lib/python2.6/dist-packages/numpy-1.5.0b2-py2.6-linux-i686.egg/numpy
>
>
> May be off-topic, but Numpy 1.5.0-release is available
> (latest is 1.5.1rc1).
>
>
> /core/numeric.py:284: RuntimeWarning: Item size computed from the PEP 3118
> buffer format string does not match the actual item size.
> return array(a, dtype, copy=False, order=order)
> .getbuffer
> .getbuffer
> .................................................Error in function (x,
> symmetric, only.values = FALSE, EISPACK = FALSE) :
> lapack routines cannot be loaded
> In addition: Warning message:
> In function (x, symmetric, only.values = FALSE, EISPACK = FALSE) :
> unable to load shared object '/usr/local/lib/R/modules//lapack.so':
> libRlapack.so: cannot open shared object file: No such file or directory
> E..Error in La.svd(x, nu, nv) : lapack routines cannot be loaded
>
>
> I suspect a mismatch between the R installation rpy2 was compiled against
> and the R installation this is run with.
>
> libRlapack.so should be in '/usr/local/lib/R/lib/' (but it is not).
>
> Are you linkingR against a system-wide LAPACK ?
>
>
>
> E.............................................................................................
> ======================================================================
> ERROR: testEigen (rpy2.robjects.tests.testArray.MatrixTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/usr/local/lib/python2.6/dist-packages/rpy2-2.1.7_20101019-py2.6-linux-i686.egg/rpy2/robjects/tests/testArray.py",
> line 91, in testEigen
> res = m.eigen()
> File
> "/usr/local/lib/python2.6/dist-packages/rpy2-2.1.7_20101019-py2.6-linux-i686.egg/rpy2/robjects/vectors.py",
> line 457, in eigen
> res = self._eigen(self)
> RRuntimeError: Error in function (x, symmetric, only.values = FALSE,
> EISPACK = FALSE) :
> lapack routines cannot be loaded
>
>
> ======================================================================
> ERROR: testSVD (rpy2.robjects.tests.testArray.MatrixTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/usr/local/lib/python2.6/dist-packages/rpy2-2.1.7_20101019-py2.6-linux-i686.egg/rpy2/robjects/tests/testArray.py",
> line 85, in testSVD
> res = m.svd()
> File
> "/usr/local/lib/python2.6/dist-packages/rpy2-2.1.7_20101019-py2.6-linux-i686.egg/rpy2/robjects/vectors.py",
> line 447, in svd
> res = self._svd(self, nu = nu, nv = nv, LINPACK = False)
> RRuntimeError: Error in La.svd(x, nu, nv) : lapack routines cannot be
> loaded
>
>
> ----------------------------------------------------------------------
> Ran 275 tests in 3.655s
>
> FAILED (errors=2)
>
> I've tried to add the /usr/local/lib/R/bin folder to the path. This
> however, did not fix the issue. Any help with this matter would be greatly
> appreciated.
>
> Thanks,
> Aman
>
>
> ------------------------------------------------------------------------------
> Download new Adobe(R) Flash(R) Builder(TM) 4
> The new Adobe(R) Flex(R) 4 and Flash(R) Builder(TM) 4 (formerly
> Flex(R) Builder(TM)) enable the development of rich applications that run
> across multiple browsers and platforms. Download your free trials
> today!http://p.sf.net/sfu/adobe-dev2dev
>
>
> _______________________________________________
> rpy-list mailing
> listrpy-l...@lists.sourceforge.nethttps://lists.sourceforge.net/lists/listinfo/rpy-list
>
>
>
--
Aman Thakral
B.Eng & Biosci, M.Eng Design
------------------------------------------------------------------------------
Download new Adobe(R) Flash(R) Builder(TM) 4
The new Adobe(R) Flex(R) 4 and Flash(R) Builder(TM) 4 (formerly
Flex(R) Builder(TM)) enable the development of rich applications that run
across multiple browsers and platforms. Download your free trials today!
http://p.sf.net/sfu/adobe-dev2dev
_______________________________________________
rpy-list mailing list
rpy-list@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/rpy-list
