Gentoo Archives: gentoo-science

From: Francois Bissey <fbissey@××××××××××××.nz>
To: gentoo-science@l.g.o
Subject: Re: [gentoo-science] sci-libs/scipy-0.9.0-r1 undefined symbol: clapack_sgesv
Date: Sat, 04 Jun 2011 00:17:14
Message-Id: 201106041215.18808.fbissey@slingshot.co.nz
In Reply to: Re: [gentoo-science] sci-libs/scipy-0.9.0-r1 undefined symbol: clapack_sgesv by Marc Vinyals
1 > Here are my logs. You'll find some warnings in the configuration
2 > stage, I hope they'll mean something to you. Also, there's no trace of
3 > libclapack.so in
4 > ldd /usr/lib64/python2.7/site-packages/scipy/linalg/clapack.so.
5
6 The output of ldd /usr/lib64/python2.7/site-packages/scipy/linalg/clapack.so
7 is very suspicious with Atlas it should look like this:
8 ldd /usr/lib/python2.7/site-packages/scipy/linalg/clapack.so
9 linux-gate.so.1 => (0xb7890000)
10 liblapack.so.0 => /usr/lib/liblapack.so.0 (0xb732a000)
11 libpython2.7.so.1.0 => /usr/lib/libpython2.7.so.1.0 (0xb71bb000)
12 libc.so.6 => /lib/libc.so.6 (0xb7035000)
13 libblas.so.0 => /usr/lib/blas/atlas/libblas.so.0 (0xb7014000)
14 libcblas.so.0 => /usr/lib/blas/atlas/libcblas.so.0 (0xb6ff2000)
15 libatlas.so.0 => /usr/lib/libatlas.so.0 (0xb6933000)
16 libgfortran.so.3 => /usr/lib/gcc/i686-pc-linux-
17 gnu/4.5.2/libgfortran.so.3 (0xb6871000)
18 libm.so.6 => /lib/libm.so.6 (0xb684b000)
19 libgcc_s.so.1 => /usr/lib/gcc/i686-pc-linux-gnu/4.5.2/libgcc_s.so.1
20 (0xb682d000)
21 libpthread.so.0 => /lib/libpthread.so.0 (0xb6813000)
22 libdl.so.2 => /lib/libdl.so.2 (0xb680f000)
23 libutil.so.1 => /lib/libutil.so.1 (0xb680b000)
24 /lib/ld-linux.so.2 (0xb7891000)
25
26 So nothing from blas/cblas/lapack was linked into your scipy which is very
27 worrying. It may be that there is a problem with your current blas&co setup.
28 what's the output of
29 ls -la /usr/lib64/libcblas.so
30
31 Francois

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Subject Author
Re: [gentoo-science] sci-libs/scipy-0.9.0-r1 undefined symbol: clapack_sgesv Marc Vinyals <marcvinyals@××××××××.com>