Python Anaconda Manual Installation Shogun

[Arcane192]

Hallo i have followed up your instructions to install Shogun manual. Installing it the other way there is a licence issue with SVMLight and i cant import it from python.

So as i read the way to have all packages available is to install it by this way:

conda create -n shogun4 python=3.6
conda activate shogun4
conda install cmake 
conda install -c creditx gcc-7
# conda install a series of other dependencies

# download source code and GPL license
git clone https://github.com/shogun-toolbox/shogun.git
cd shogun/src
git clone https://github.com/shogun-toolbox/shogun-gpl.git
cp shogun-gpl/* gpl/ -R

cd ..
mkdir build
cd build
cmake -DCMAKE_INSTALL_PREFIX=/export/home/kici/anaconda3/envs/shogun4 -DPYTHON_EXECUTABLE=/export/home/kici/anaconda3/envs/shogun4/bin/python -DPYTHON_INCLUDE_DIR=/export/home/kici/anaconda3/envs/shogun4/include/python3.6m -DPYTHON_LIBRARY=/export/home/kici/anaconda3/envs/shogun4/lib/libpython3.6m.so -DINTERFACE_PYTHON=ON ..

But cmake this gives me this output:

-- dir='/home/kici/shogun/src'
-- dir='/home/kici/shogun/build/src'
-- dir='/home/kici/shogun/src/gpl'
-- Found OpenMP_C: -fopenmp  
-- Found OpenMP_CXX: -fopenmp  
-- Found OpenMP: TRUE   
-- Using system's malloc
-- Could NOT find OPENCL (missing: OPENCL_LIBRARY OPENCL_INCLUDE_DIR) 
-- Could NOT find ViennaCL (missing: VIENNACL_INCLUDE_DIR VIENNACL_ENCODED_VERSION OpenCL_INCLUDE_DIRS OpenCL_LIBRARIES) (Required is at least version "1.5.0")
-- Could NOT find rxcpp (missing: rxcpp_INCLUDE_DIR) 
-- Could NOT find TFLogger (missing: TFLogger_DIR)
-- Found MKL using as BLAS/LAPACK backend.
-- Could NOT find spdlog (missing: spdlog_DIR)
-- Could NOT find GLPK (missing: GLPK_LIBRARY GLPK_INCLUDE_DIR GLPK_PROPER_VERSION_FOUND) 
-- Could NOT find LibArchive (missing: LibArchive_LIBRARY LibArchive_INCLUDE_DIR) 
-- Could NOT find CPLEX (missing: CPLEX_LIBRARY CPLEX_INCLUDE_DIR) 
-- Could NOT find MOSEK (missing: MOSEK_DIR MOSEK_INCLUDE_DIR MOSEK_LIBRARY MOSEK_LIBRARIES) 
-- Could NOT find Protobuf (missing: Protobuf_INCLUDE_DIR) 
-- Could NOT find HDF5 (missing: HDF5_LIBRARIES HDF5_INCLUDE_DIRS) (found version "")
-- Could NOT find SNAPPY (missing: SNAPPY_LIBRARIES SNAPPY_INCLUDE_DIR) 
-- Lzo includes and libraries NOT found. 
-- Could NOT find NLOPT (missing: NLOPT_LIBRARY NLOPT_INCLUDE_DIR) 
-- Could NOT find LPSOLVE (missing: LPSOLVE_LIBRARIES LPSOLVE_INCLUDE_DIR) 
-- Could NOT find ColPack (missing: COLPACK_LIBRARIES COLPACK_LIBRARY_DIR COLPACK_INCLUDE_DIR) 
-- Could NOT find ARPREC (missing: ARPREC_LIBRARIES ARPREC_INCLUDE_DIR) 
-- Linker: GNU gold
CMake Warning (dev) at src/interfaces/python/CMakeLists.txt:3 (FIND_PACKAGE):
  Ignoring EXACT since no version is requested.
This warning is for project developers.  Use -Wno-dev to suppress it.

CMake Error at cmake/FindNumPy.cmake:62 (message):
  NumPy import failure:

Call Stack (most recent call first):
  src/interfaces/python/CMakeLists.txt:4 (FIND_PACKAGE)

-- Configuring incomplete, errors occurred!
See also "/home/kici/shogun/build/CMakeFiles/CMakeOutput.log".
See also "/home/kici/shogun/build/CMakeFiles/CMakeError.log".

I have Numpy installed. Any idea how to solve this?

Thanks!

[karlnapf]

is numpy available as an import within the conda environment you are running from. Try import numpy in a Python interpreter

[Arcane192]

Hi karlnapf,

(base) kici@kici-Hyrican-PC:~$ conda activate shogun4
(shogun4) kici@kici-Hyrican-PC:~$ python
Python 3.6.10 |Anaconda, Inc.| (default, May  8 2020, 02:54:21) 
[GCC 7.3.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import numpy
>>> 

This is my output. I think numpy is installed correctly.

[karlnapf]

ok, another option you have is to explicitly pass the python environment paths to cmake when confguring shogun. Have a look here: https://github.com/shogun-toolbox/shogun/blob/develop/doc/readme/INSTALL.md#customized-python-environments-

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