Almost there (I hope)! I removed everything (step 7) and installed again
with "conda install "fenics=1.4.0" mkl --channel
https://conda.binstar.org/juanlu001/channel/fenics:1.4.0:centos";. Here is
the result again.
>>> import dolfin
> Traceback (most recent call last):
> File "<stdin>", line 1, in <module>
> File
> "<INSTALL_PATH>/anaconda/lib/python2.7/site-packages/dolfin/__init__.py",
> line 16, in <module>
> import cpp
> File
> "<INSTALL_PATH>/anaconda/lib/python2.7/site-packages/dolfin/cpp/__init__.py",
> line 42, in <module>
> exec("import %s" % module_name)
> File "<string>", line 1, in <module>
> File
> "<INSTALL_PATH>/anaconda/lib/python2.7/site-packages/dolfin/cpp/common.py",
> line 32, in <module>
> _common = swig_import_helper()
> File
> "<INSTALL_PATH>/anaconda/lib/python2.7/site-packages/dolfin/cpp/common.py",
> line 28, in swig_import_helper
> _mod = imp.load_module('_common', fp, pathname, description)
> ImportError:
> <OTHER_INSTALL_PATH>/bin/opt/intel/ifc12.1/composer_xe_2011_sp1.9.293/mkl/lib/intel64/libmkl_sequential.so:
> undefined symbol: mkl_serv_mkl_print
>
Hoping this will be the last hurdle.
Maarten
On 27 January 2015 at 23:12, Juan Luis Cano <[email protected]> wrote:
> On 2015-01-27 11:40, Maarten wrote:
>
> Here you go:
>
> > ldd
>> <INSTALL_PATH>/anaconda/envs/fenics27/lib/python2.7/site-packages/dolfin/cpp/_common.so
>> | grep libbz2
>> ldd: warning: you do not have execution permission for
>> `<INSTALL_PATH>/anaconda/envs/fenics27/lib/python2.7/site-packages/dolfin/cpp/_common.so'
>> <INSTALL_PATH>/anaconda/envs/fenics27/lib/python2.7/site-packages/dolfin/cpp/_common.so:
>> /lib64/libc.so.6: version `GLIBC_2.14' not found (required by
>> <INSTALL_PATH>/anaconda/envs/fenics27/lib/python2.7/site-packages/dolfin/cpp/../../../../libboost_filesystem.so.1.55.0)
>> <INSTALL_PATH>/anaconda/envs/fenics27/lib/python2.7/site-packages/dolfin/cpp/_common.so:
>> /lib64/libc.so.6: version `GLIBC_2.14' not found (required by
>> <INSTALL_PATH>/anaconda/envs/fenics27/lib/python2.7/site-packages/dolfin/cpp/../../../../libboost_program_options.so.1.55.0)
>> libbz2.so.1.0 => not found
>>
>
>
> Okay, I suspect you are installing some version cached in your system: I
> say this because boost is trying to locate libc 2.14, but that was for the
> package I compiled nearly a month ago in Linux Mint. I had already
> recompiled it in CentOS 6.6, checked in my system and my linking
> information is different than yours.
>
> So what I think will solve the problem is:
>
> 1. Remove the boost 1.55 conda package from all your environments. If you
> only have one:
>
> (fenics27) $ conda remove boost
>
> 2. Clean the conda cache, both the packages and the tarballs. Important:
> if you type these commands and boost is not in the list of things to
> remove, you need to go to step 1 and find in which environment is boost
> still installed. conda won't clean it from the cache until it's used
> nowhere.
>
> $ conda clean --packages
> $ conda clean --tarballs
>
> 3. Go to step 4 :)
>
> 4. Reinstall it:
>
> (fenics27) $ conda install "boost=1.55" --channel
> https://conda.binstar.org/juanlu001/channel/fenics:1.4.0:centos
>
> 5. Repeat the ldd steps. If boost is still looking for GLIBC 2.14 then I'm
> afraid you have to go back to step 1.
>
> 6. Our libbz2 libraries are the same, so there are good chances the next
> one will be a happy email with a working FEniCS installation :)
>
> 7. You always have the option of removing the created environment with all
> its packages, clean all the caches and start afresh:
>
> $ conda remove -n fenics27 --all
> $ conda clean --packages
> $ conda clean --tarballs
>
> I hope this helps!
>
> Regards,
>
> Juan Luis
>
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