I am trying to run survival analysis in python (pycharm) in linux, here is a part of the code
import numpy as np
import matplotlib.pyplot as plt
#matplotlib inline
import pandas as pd
from sklearn.impute import SimpleImputer
from sklearn.pipeline import make_pipeline
from sklearn.model_selection import train_test_split
from sksurv.datasets import load_flchain
from sksurv.linear_model import CoxPHSurvivalAnalysis
I get the error "ModuleNotFoundError: No module named 'sksurv'", I tried everything, but nothing works.
The required dependencies for scikit-survival,
cvxpy
cvxopt
joblib
numexpr
numpy 1.12 or later
osqp
pandas 0.21 or later
scikit-learn 0.22
scipy 1.0 or later
...will be automatically installed by pip when you run:
pip install scikit-survival
However, one module in particular, osqp, has CMake as one of its dependencies. If you don't have CMake installed, pip install scikit-survival will throw an error and the installation will fail.
You can download CMake for your OS at cmake.org/download
After CMake has installed, you should be able to successfully run
pip install scikit-survival
Notes: