ValueError: Data is not binary and pos_label is not specified

Question

I am trying to calculate roc_auc_score, but I am getting following error.

"ValueError: Data is not binary and pos_label is not specified"

My code snippet is as follows:

import numpy as np
from sklearn.metrics import roc_auc_score
y_scores=np.array([ 0.63, 0.53, 0.36, 0.02, 0.70 ,1 , 0.48, 0.46, 0.57])
y_true=np.array(['0', '1', '0', '0', '1', '1', '1', '1', '1'])
roc_auc_score(y_true, y_scores)

Please tell me what is wrong with it.

Solution

You only need to change y_trueso it looks like this:

y_true=np.array([0, 1, 0, 0, 1, 1, 1, 1, 1])

Explanation: If you take a look to what roc_auc_score functions does in https://github.com/scikit-learn/scikit-learn/blob/0.15.X/sklearn/metrics/metrics.py you will see that y_true is evaluated as follows:

classes = np.unique(y_true)
if (pos_label is None and not (np.all(classes == [0, 1]) or
 np.all(classes == [-1, 1]) or
 np.all(classes == [0]) or
 np.all(classes == [-1]) or
 np.all(classes == [1]))):
    raise ValueError("Data is not binary and pos_label is not specified")

At the moment of the execution pos_label is None, but as long as your are defining y_true as an array of characters the np.all are always false and as all of them are negated then the if condition is trueand the exception is raised.

Comments

[jabaldonedo]

Seems like the file was deleted a long time ago and its no longer working in current version, I have updated the link to an older version