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wangyiqiu avatar wangyiqiu commented on June 20, 2024

Did you initialize the dependencies? See instructions here
If it still does not work for you, please share the commands, system, and architecture that you used.

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garcia-nacho avatar garcia-nacho commented on June 20, 2024

Yes I did it.
I did it inside a conda environment since I don't want to install all the required packages on my base environment because of compatibility issues.

Same error on two different computers, the last one Ubuntu 19.04 (x86_64)
Commands:

conda create -n hdbscan
conda activate hdbscan 
conda install pip
git clone https://github.com/wangyiqiu/hdbscan.git
cd hdbscan
git submodule init
git submodule update
pip3 install -r pybindings/requirements.txt
mkdir build
cd build
cmake ..
make -j

and again the last lines of the error:

In file included from /home/nacho/anaconda3/envs/hdbscan/include/python3.11/Python.h:42,
                 from /home/nacho/hdbscan/external/pybind11/include/pybind11/detail/common.h:124,
                 from /home/nacho/hdbscan/external/pybind11/include/pybind11/pytypes.h:12,
                 from /home/nacho/hdbscan/external/pybind11/include/pybind11/cast.h:13,
                 from /home/nacho/hdbscan/external/pybind11/include/pybind11/attr.h:13,
                 from /home/nacho/hdbscan/external/pybind11/include/pybind11/pybind11.h:45,
                 from /home/nacho/hdbscan/pybindings/pyhdbscan.cpp:6:
/home/nacho/anaconda3/envs/hdbscan/include/python3.11/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’}
   22 | typedef struct _frame PyFrameObject;
      |                ^~~~~~
make[2]: *** [pybindings/CMakeFiles/pyhdbscan.dir/build.make:63: pybindings/CMakeFiles/pyhdbscan.dir/pyhdbscan.cpp.o] Error 1
make[1]: *** [CMakeFiles/Makefile2:187: pybindings/CMakeFiles/pyhdbscan.dir/all] Error 2
make: *** [Makefile:84: all] Error 2

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wangyiqiu avatar wangyiqiu commented on June 20, 2024

from hdbscan.

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