name 'sys' is not defined
Pieter van Oostrum
pieter-l at vanoostrum.org
Mon Dec 30 10:04:46 EST 2019
safiq713 at gmail.com writes:
> Deal all,
> Could you please help me how can I avoid this problem
> my Jupyter Notebook code was
> help pls
>
>
>
> # init a treemix analysis object with some param arguments
> tmx = ipa.treemix(
> data=data,
> imap=imap,
> minmap=minmap,
> seed=123456,
> root="Petronia_petronia",
> m=2,
> )
>
> error
>
> NameError Traceback (most recent call last)
> <ipython-input-8-d80ffd5719d7> in <module>
> 6 seed=123456,
> 7 root="Petronia_petronia",
> ----> 8 m=2,
> 9 )
>
> ~/opt/miniconda3/envs/py3/lib/python3.6/site-packages/ipyrad/analysis/treemix.py in __init__(self, data, name, workdir, imap, minmap, seed, quiet, raise_root_error, binary, *args, **kwargs)
> 118
> 119 # others
> --> 120 self.binary = os.path.join(sys.prefix, "bin", "treemix")
> 121 self.binary = (binary if binary else self.binary)
> 122 self.raise_root_error = raise_root_error
>
> NameError: name 'sys' is not defined
As the name sys is used in the imported module, that module has to import sys.
Importing it in the calling code doesn't help.
So I would say this is a bug in the module.
You should report the bug to its author. In the meantime you can correct your own copy at
~/opt/miniconda3/envs/py3/lib/python3.6/site-packages/ipyrad/analysis/treemix.py
by adding
import sys
for example around line 10
--
Pieter van Oostrum
www: http://pieter.vanoostrum.org/
PGP key: [8DAE142BE17999C4]
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