Error runining PyRosetta “undefined symbol: __sinh_finite”

[Anonymous]

Hi all!
*OS*: Mint Linux 17,
64bit Linux (3.13.0-24-generic #46-Ubuntu SMP Thu Apr 10 19:11:08 UTC 2014 x86_64 x86_64 x86_64 GNU/Linux
*Python*: Python 2.7.7 |Continuum Analytics, Inc.| (default, Jun 2 2014, 12:34:02) [GCC 4.1.2 20080704 (Red Hat 4.1.2-54)] on linux2
*PyRosseta*: PyRosetta.Ubuntu-12.04LTS.64Bit.devel-r56795

While trying to import PyRosseta I get the following error:
“ImportError: rosetta/libmini.so: undefined symbol: __sinh_finite”

Here are the full steps: Inside of a bash shell I do:
. SetPyRosettaEnvironment.sh
python
import rosetta

Here is the stack trace:
Traceback (most recent call last): File ““, line 1, in File “rosetta/__init__.py”,
line 30, in import utility File “rosetta/utility/__init__.py”,
line 1, in from _utility_ import *
ImportError: rosetta/libmini.so: undefined symbol: __sinh_finite

Any help is very welcome.
Thank you,
Ajasja Ljubetič

[Anonymous]

This seems to be connected to Anaconda python.
If I use the system python (
Python 2.7.6 (default, Mar 22 2014, 22:59:56)
[GCC 4.8.2] on linux2)
Then I get a different error:
File “rosetta/__init__.py”, line 45, in
import numeric
ImportError: No module named numeric

And indeed the whole numeric subdirectory is missing under the rosetta module. Will try to re-download the tar.bz2 file.

[Anonymous]

Happy to report the PyRosetta.Ubuntu-12.04LTS.64Bit.namespace.mode=release.branch=release-r21 works correctly with the system python version!

I did notice that the database directory is no longer named “rosetta_database”, but just “database”.
In “SetPyRosettaEnvironment.sh” the line for the database is:
export PYROSETTA_DATABASE=$PYROSETTA/rosetta_database
(so the wrong name, but somehow the correct database directory is found nevertheless).

[Anonymous]

ajasja,

I am having this missing numeric module when I tried to install on Ubuntu. What fixed this problem for you?

Did you use a different file than the regular tar.bz2 file?

Thanks for your help

[Anonymous]

Hi,

Yes, I downloaded a different release. (What each release means is described here).

Best regards,

Ajasja

[Author]

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