[pymvpa] [ID#17120134] Running Searchlight on ETH cluster

[Nick Oosterhof]

Greetings,

On 30 October 2017 at 08:38, Samuel Fux via Ticketsystem ID-ETH <
servicedesk at id.ethz.ch> wrote:

> I followed the installation instructions that you are referring to. I have
> also opened an issue on the PyMVPA github repository:
>
> https://github.com/PyMVPA/PyMVPA/issues/544
>
> I have already closed the issue once, because I thought that I had solved
> the problem, but when Pegah tested the installation, we figured out that
> still something went wrong in the linking step of the installation, because
> she got the error message:
>
>    from mvpa2.clfs.svm import LinearNuSVMC
>
> ImportError: cannot import name 'LinearNuSVMC'
> Because of this problem, I deleted the PyMVPA installation and tried again
> from scratch. Meanwhile I have reopened the issue on github.
>
> The svm library is installed in the following location:
>
> [sfux at eu-c7-012-13 PyMVPA]$ ls -ltr /cluster/apps/libsvm/3.2.2/
> x86_64/libsvm.so.2
> -rwxr-xr-x 1 apps ID-HPC-APPS 85392 Oct 24 10:45
> */cluster/apps/libsvm/3.2.2/x86_64/libsvm.so.2*
>
> Therefore I don't understand, why the linking step fails:
>
> /cluster/apps/gcc/4.8.2/bin/gcc -pthread -shared
> build/temp.linux-x86_64-3.6/mvpa2/clfs/libsmlrc/smlr.o
> -L/cluster/apps/python/3.6.0/x86_64/lib64 -lm -lpython3.6m -o
> build/lib.linux-x86_64-3.6/mvpa2/clfs/libsmlrc/smlrc.
> cpython-36m-x86_64-linux-gnu.so *-L/cluster/apps/libsvm/3.2.2/x86_64
> -lsvm*
> /usr/bin/ld: cannot find -lsvm
>
> At the moment my guess is, that the linker flag should be placed before
> the "-o" parameter.
>

I don't have a direct suggestion here. Could you maybe post the output of:

    python -c 'import mvpa2; print(mvpa2.wtf())'

This /may/ help in solving the issue.
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