LogisticRegression scikit studies covariance (column) issues in training

Question

For some reason, the covariance order seems to matter with the LogisticRegressionclassifier in scikit-learn, which seems odd to me, I have 9 covariances and binary output, and when I change the order of the columns and call fit()and then call predict_proba(), the output is different . Game example below

logit_model = LogisticRegression(C=1e9, tol=1e-15)

Following

logit_model.fit(df['column_2','column_1'],df['target'])
logit_model.predict_proba(df['column_2','column_1'])

array([[ 0.27387109,  0.72612891] ..])

Gives another result:

logit_model.fit(df['column_1','column_2'],df['target'])
logit_model.predict_proba(df['column_1','column_2'])

array([[ 0.26117794,  0.73882206], ..])

This seems unexpected to me, but maybe it's just a lack of knowledge about internal algorithms and the fitting method.

What am I missing?

EDIT: Here is the complete code and data

data: https://s3-us-west-2.amazonaws.com/gjt-personal/test_model.csv

import pandas as pd
from sklearn.linear_model import LogisticRegression

df = pd.read_csv('test_model.csv',index_col=False)

columns1 =['col_1','col_2','col_3','col_4','col_5','col_6','col_7','col_8','col_9']
columns2 =['col_2','col_1','col_3','col_4','col_5','col_6','col_7','col_8','col_9']

logit_model = LogisticRegression(C=1e9, tol=1e-15)

logit_model.fit(df[columns1],df['target'])
logit_model.predict_proba(df[columns1])

logit_model.fit(df[columns2],df['target'])
logit_model.predict_proba(df[columns2])

It turns out that something is connected with tol=1e-15, because it gives a different result.

LogisticRegression(C=1e9, tol=1e-15)

.

LogisticRegression(C=1e9)

Answer 1

.

. StandardScaler , , .

, - , LineSearchWarning ConvergenceWarning. , 1e-15. (1e9), , tol 1e-4 . ( ).

:

import numpy as np
from sklearn.preprocessing import StandardScaler
from sklearn.linear_model import LogisticRegression

ss = StandardScaler()
cols1 = np.arange(9)
cols2 = np.array([1,0,2,3,4,5,6,7,8])
X = ss.fit_transform(df.drop('target', axis=1))

lr = LogisticRegression(solver='newton-cg', tol=1e-4, C=1e9)
lr.fit(X[:, cols1], df['target'])
preds_1 = lr.predict_proba(X[:, cols1])

lr.fit(X[:, cols2], df['target'])
preds_2 = lr.predict_proba(X[:, cols2])

preds_1 
array([[  0.00000000e+00,   1.00000000e+00],
       [  0.00000000e+00,   1.00000000e+00],
       [  0.00000000e+00,   1.00000000e+00],
       ...,
       [  1.00000000e+00,   9.09277801e-31],
       [  1.00000000e+00,   3.52079327e-35],
       [  1.00000000e+00,   5.99607407e-30]])

preds_2
array([[  0.00000000e+00,   1.00000000e+00],
       [  0.00000000e+00,   1.00000000e+00],
       [  0.00000000e+00,   1.00000000e+00],
       ...,
       [  1.00000000e+00,   9.09277801e-31],
       [  1.00000000e+00,   3.52079327e-35],
       [  1.00000000e+00,   5.99607407e-30]])

preds_1 == preds_2 , 1-40 + , , , .

Answer 2

.

DataFrame sklearn, ( )

, , , , - , .

:

array([[ 0.26117794, 0.73882206], ..]) , , , 26% 0 74% 1. . .

, , .