Could not import packages for CMIknn and GPDC estimation about tigramite

[jakobrunge]

It means that you didn't follow the installation instructions:
python setup.py install
This will install tigramite in your path.
To use just the ParCorr and CMIsymb independence tests, only numpy and scipy are required. For other independence tests more packages are required:
CMIknn: cython can optionally be used for compilation, otherwise the provided *.c'' file is used GPDC: also based on cython, and additionally, scikit-learn is required for Gaussian Process regression RCOT requires more work: Firstly, rpy2 is required to access R-packages. The required R-packages can be installed with the script install_r_packages.sh''. Due to R-related issues, the installation of R's devtools might fail when running "install_r_packages.sh". This can be solved e.g. by installing missing / not resolved R dependencies using conda: "conda install r-git2r".

RCOT will not be in future releases to avoid R-dependencies.

[yubaocheng258]

It means that you didn't follow the installation instructions:
python setup.py install
This will install tigramite in your path.
To use just the ParCorr and CMIsymb independence tests, only numpy and scipy are required. For other independence tests more packages are required:
CMIknn: cython can optionally be used for compilation, otherwise the provided *.c'' file is used GPDC: also based on cython, and additionally, scikit-learn is required for Gaussian Process regression RCOT requires more work: Firstly, rpy2 is required to access R-packages. The required R-packages can be installed with the script install_r_packages.sh''. Due to R-related issues, the installation of R's devtools might fail when running "install_r_packages.sh". This can be solved e.g. by installing missing / not resolved R dependencies using conda: "conda install r-git2r".
RCOT will not be in future releases to avoid R-dependencies.

Thank you for your reply, I will try it

[yubaocheng258]

It means that you didn't follow the installation instructions:
python setup.py install
This will install tigramite in your path.
To use just the ParCorr and CMIsymb independence tests, only numpy and scipy are required. For other independence tests more packages are required:
CMIknn: cython can optionally be used for compilation, otherwise the provided *.c'' file is used GPDC: also based on cython, and additionally, scikit-learn is required for Gaussian Process regression RCOT requires more work: Firstly, rpy2 is required to access R-packages. The required R-packages can be installed with the script install_r_packages.sh''. Due to R-related issues, the installation of R's devtools might fail when running "install_r_packages.sh". This can be solved e.g. by installing missing / not resolved R dependencies using conda: "conda install r-git2r".
RCOT will not be in future releases to avoid R-dependencies.

Sorry, I have already test all packages : include numpy, scipy, scikit-learn,matplotlib,networkx,cython,mpi4py,rpy2,r-git2r and RCIT,but it still display "Could not import packages for CMIknn and GPDC estimation". What should I do?

[yubaocheng258]

Further more ,If I used cmd to run the example,it will diaplay the error like the picture ,I also install the tigramite-developer, I wonder what's worng with that. I'm looking forward to your replay. Thank you

[jakobrunge]

Sorry, that was a typo, use pcmci.print_significant_links(...) instead (without the prefix "_").
It's fixed in the developer now....

[yubaocheng258]

Thank you for your reply.The problem solved.Thank you very much!!!!