symbol lookup error: /usr/lib/liblapack.so.3gf: undefined symbol: ATL_dGetNB

[Rüdiger Sonderfeld]

When I call the function polyfit in octave it results in the following error "symbol lookup error: /usr/lib/liblapack.so.3gf: undefined symbol: ATL_dGetNB" and octave exits immediately.

Here is an example code that illustrates the problem

    x = 1:10:80;
    y = erfc(x);
    p = polyfit(x,y,8)

I'm using libatlas:

$ update-alternatives --display liblapack.so.3gf
liblapack.so.3gf - auto mode
  link currently points to /usr/lib/atlas-base/atlas/liblapack.so.3gf
/usr/lib/atlas-base/atlas/liblapack.so.3gf - priority 35
/usr/lib/lapack/liblapack.so.3gf - priority 10
Current 'best' version is '/usr/lib/atlas-base/atlas/liblapack.so.3gf'.

$ nm -D /usr/lib/liblapack.so.3gf | grep ATL_dGetNB
                 U ATL_dGetNB

I'm using Kubuntu 12.04

[Rüdiger Sonderfeld (ruediger-c-plusplus)]

Workarround: Switch to the default lapack

sudo update-alternatives --set liblapack.so.3gf /usr/lib/lapack/liblapack.so.3gf

Requires package "liblapack3gf".

[Mike Miller (mtmiller)]

See http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=624318 for details on the status of this.

In addition to your solution, you can also configure blas to be the Atlas implementation, which should have been the default.

Try either:

$ sudo update-alternatives --auto libblas.so.3gf

or

$ sudo update-alternatives --set libblas.so.3gf /usr/lib/atlas-base/atlas/libblas.so.3gf

[Mike Miller (mtmiller)]

Reassigned to Ubuntu atlas package.

[Launchpad Janitor (janitor)]

Status changed to 'Confirmed' because the bug affects multiple users.

[Martin Konôpka (martin.konopka)]

The problem with ATLAS manifests itself not only when calling (from octave) the polyfit() function but also in other cases. In my case I need to perform inversion of a complex matrix:

imat = inv(mat);

Doing this, I see an error message

/usr/bin/octave: symbol lookup error: /usr/lib/liblapack.so.3gf: undefined symbol: ATL_izamax

[Sylvestre Ledru (sylvestre)]

See:
http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=638236

[Mike Miller (mtmiller)]

Thank you for taking the time to report this bug and helping to make Ubuntu better. However, I am closing it because the bug has been fixed in the latest development version of Ubuntu - Utopic Unicorn.

If you need a fix for the bug in previous versions of Ubuntu, please follow the instructions for "Requesting a Backport" at https://wiki.ubuntu.com/UbuntuBackports#Requesting_a_Backport