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cggh / biipy

Docker image for bioinformatics analysis.
MIT License
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rpy2 error #28

Closed alimanfoo closed 8 years ago

alimanfoo commented 8 years ago

Applies to biipy v2.1.0:

ImportErrorTraceback (most recent call last)
/media/aliman/SD1/src/github/malariagen/ag1000g/notebooks/aliman/imports.ipynb in <module>()
     19 from IPython.display import clear_output, display, HTML
     20 import rpy2
---> 21 import rpy2.robjects as ro
     22 get_ipython().magic('reload_ext rpy2.ipython')
     23 import statsmodels

/anaconda/envs/science/lib/python3.5/site-packages/rpy2/robjects/__init__.py in <module>()
     13 import itertools
     14 from datetime import datetime
---> 15 import rpy2.rinterface as rinterface
     16 import rpy2.rlike.container as rlc
     17 

/anaconda/envs/science/lib/python3.5/site-packages/rpy2/rinterface/__init__.py in <module>()
     97 
     98 
---> 99 from rpy2.rinterface._rinterface import *
    100 
    101 

ImportError: /anaconda/envs/science/bin/../lib/libreadline.so.6: undefined symbol: PC
hardingnj commented 8 years ago

Yes, I ran into this. Should be fixed as of commit 60cdfc9e921a55080f90dad943b86f3325466eed

I need to roll out a new tag. In the meantime, cggh/biipy:latest will work

hardingnj commented 8 years ago

Just pushing a few other things. Treemix and R via conda. If it passes I will set a new release.

hardingnj commented 8 years ago

Fixed in the new release. 2.2.0