In stall transabyss error: ImportError: site-packages/igraph/_igraph.so: undefined symbol: PyUnicodeUCS2_AsEncodedString

[clin...@umn.edu]

Hello,

I tried to install transabyss on the server of our university.
I installed the python-igraph pip. I also installed abyss, blat. I use python 2.7.6.
However, when I try to run the ./transabyss in the software dir.  I got error:
clingyun@node0003 [~/biosofts/transabyss-master] % ./transabyss
Traceback (most recent call last):
  File "./transabyss", line 18, in <module>
    from utilities.adj_utils import has_edges
  File "/panfs/roc/groups/0/yangya/clingyun/biosofts/transabyss-master/utilities/adj_utils.py", line 7, in <module>
    import igraph
  File "/home/yangya/clingyun/.local/lib/python2.7/site-packages/igraph/__init__.py", line 34, in <module>
    from igraph._igraph import *
ImportError: /home/yangya/clingyun/.local/lib/python2.7/site-packages/igraph/_igraph.so: undefined symbol: PyUnicodeUCS2_AsEncodedString

Could you please help me?
Thanks for any help.

Best wishes,

Chen Lingyun

[Ka Ming Nip]

Hi,

Sorry for the late reply. I am on vacation.

It looks like there is a problem with importing the igraph library in Python.

Can you test to see if you can import igraph from the Python console?

$ python
>>> import igraph

If you get an error here, then that means the igraph library was not install properly.

Thanks,
Ka Ming

--
Ka Ming Nip
Graduate Student | Dr. Inanc Birol Lab (BTL)
Canada's Michael Smith Genome Sciences Centre
________________________________________
From: trans...@googlegroups.com [trans...@googlegroups.com] On Behalf Of clin...@umn.edu [clin...@umn.edu]
Sent: December 26, 2017 9:54 PM
To: Trans-ABySS
Subject: In stall transabyss error: ImportError: site-packages/igraph/_igraph.so: undefined symbol: PyUnicodeUCS2_AsEncodedString

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