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mkorycinski avatar mkorycinski commented on August 10, 2024

Hi,

Is there a fix for that issue? I experience the same thing while using Python 3.5.2:

In [5]: import bx.align.maf
---------------------------------------------------------------------------
ImportError                               Traceback (most recent call last)
<ipython-input-5-21b2f5031b71> in <module>()
----> 1 import bx.align.maf

/usr/local/lib/python3.5/dist-packages/bx_python-0.8.0-py3.5-linux-x86_64.egg/bx/align/maf.py in <module>()
     12 from bx import interval_index_file
     13 from bx.align import *
---> 14 from bx.misc.seekbzip2 import SeekableBzip2File
     15 
     16 MAF_INVERSE_STATUS = 'V'

/usr/local/lib/python3.5/dist-packages/bx_python-0.8.0-py3.5-linux-x86_64.egg/bx/misc/seekbzip2.py in <module>()
      8 from six import Iterator
      9 
---> 10 from ._seekbzip2 import SeekBzip2
     11 
     12 

ImportError: /usr/local/lib/python3.5/dist-packages/bx_python-0.8.0-py3.5-linux-x86_64.egg/bx/misc/_seekbzip2.cpython-35m-x86_64-linux-gnu.so: undefined symbol: PyString_FromStringAndSize

Problem does not seem to appear in Python 2.7 though.

Thank you in advance for your help!

With best regards,
Mateusz

from bx-python.

jxtx avatar jxtx commented on August 10, 2024

from bx-python.

mkorycinski avatar mkorycinski commented on August 10, 2024

Ok, I see. Thanks for fast reply!

from bx-python.

nsoranzo avatar nsoranzo commented on August 10, 2024

This is fixed, Python 3 has been supported for some time.

from bx-python.

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