python scipy stats module: ValueError: 'axis' entry is out of bounds

Question

I'm using scipy's stats to calculate Fisher's Exact Test score.. It works perfectly fine, except for some matrices, it returns valueError. For example,

odds, pvalue = stats.fisher_exact([[1,2],[9,84419233]])

returns

Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/Library/Python/2.7/site-packages/scipy-0.14.0.dev_4938da3-py2.7-macosx-10.8-x86_64.egg/scipy/stats/stats.py", line 2606, in fisher_exact
    if float(np.abs(pexact - pmode)) / np.abs(np.max(pexact, pmode)) <= 1 - epsilon:
  File "/Library/Python/2.7/site-packages/numpy-1.9.0.dev_fde3dee-py2.7-macosx-10.8-x86_64.egg/numpy/core/fromnumeric.py", line 2126, in amax
    return amax(axis=axis, out=out)
  File "/Library/Python/2.7/site-packages/numpy-1.9.0.dev_fde3dee-py2.7-macosx-10.8-x86_64.egg/numpy/core/_methods.py", line 17, in _amax
    out=out, keepdims=keepdims)
ValueError: 'axis' entry is out of bounds

I have no idea why this shouldn't work..

Could someone please help me out?

This looks like a bug in fisher_exact.

Warren Weckesser
– Warren Weckesser

2013-10-23 18:11:35 +00:00
Commented Oct 23, 2013 at 18:11 — Warren Weckesser
– Warren Weckesser, Commented Oct 23, 2013 at 18:11

Warren Weckesser · Accepted Answer · 2013-10-23 18:52:43Z

1

This is a bug in the fisher_exact function. I've reported the problem here: https://github.com/scipy/scipy/issues/3014

answered Oct 23, 2013 at 18:52

Warren Weckesser

116k20 gold badges207 silver badges224 bronze badges

Sign up to request clarification or add additional context in comments.

Collectives™ on Stack Overflow

python scipy stats module: ValueError: 'axis' entry is out of bounds

1 Answer 1

Comments

Your Answer

Hot Network Questions

Collectives™ on Stack Overflow

1 Answer 1

Comments

Your Answer

Sign up or log in

Post as a guest

Related