Error on install_longintrepr.h

[manueldeprada]

I came across this error while trying to install on Python 3.11 or Python 3.10:

gcc -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -D_GNU_SOURCE -fPIC -fwrapv -fPIC -I/home/prada/.local/lib/python3.11/site-packages/numpy/core/include -I. -I/usr/include/python3.11 -c GPy/kern/src/stationary_cython.c -o build/temp.linux-x86_64-cpython-311/GPy/kern/src/stationary_cython.o -fopenmp -O3
      GPy/kern/src/stationary_cython.c:196:12: error fatal: longintrepr.h: File does not exist
        196 |   #include "longintrepr.h"
            |            ^~~~~~~~~~~~~~~

Solution I found: download sources from git, link like ln -s /usr/include/python3.10/cpython/longintrepr.h longintrepr.h and build GPy.

It still doesn't build in Python 3.11 due API changes like this one:

GPy/kern/src/stationary_cython.c:318:11: error: no enough arguments for function ‘PyCode_New’
  318 |           PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)
      |           ^~~~~~~~~~

but soft-linking longintrepr.h allows successful building with Python 3.10.

[casellimarco]

Installing python3.10-dev solves it, I haven't tried it on 3.11

[muxator]

Same error here: Fedora 37, python 3.11.1, tried to install GPy 1.10.0 via pip.

Apparently there are no binary wheels available for python 3.11 (and 3.100, too). Pip then tries to locally build GPy, and there is this failure (which is due to changes in CPython):

gcc [...] -c GPy/kern/src/stationary_cython.c -o [...]/stationary_cython.o [...]
GPy/kern/src/stationary_cython.c:196:12: fatal error: longintrepr.h: No such file or directory
    196 |   #include "longintrepr.h"
        |            ^~~~~~~~~~~~~~~
compilation terminated.

[bpkroth]

(hasty notes) Looking at this for a conda environment too. There the .h file is in the conda env, but the path to find it is missing. It only looks in include/python3.11 instead of include/python3.11/cython which is where the .h file is.

[jeremysanders]

The real fix is for someone to run cython on each of the .pyx files in the repository, and replacing the generated .c files in the repository.

[muxator]

Hi, are there any plans to support python 3.11? This is going to be a progressively bigger issue as times goes by. Is some help needed?

[muxator]

Note for whoever is following this issue: the closer fix seems to be this PR: #1020.