Installation failed: longintrepr.h: no such file or directory

[ahillsley]

On installation got the error message:

gcc -pthread -B /groups/funke/home/hillsleya/mambaforge/envs/liv_zones/compiler_compat -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /groups/funke/home/hillsleya/mambaforge/envs/liv_zones/include -fPIC -O2 -isystem /groups/funke/home/hillsleya/mambaforge/envs/liv_zones/include -fPIC -I/groups/funke/home/hillsleya/projects/tracking/waterz/waterz -I/groups/funke/home/hillsleya/projects/tracking/waterz/waterz/backend -I/groups/funke/home/hillsleya/mambaforge/envs/liv_zones/include/python3.11 -I/groups/funke/home/hillsleya/mambaforge/envs/liv_zones/lib/python3.11/site-packages/numpy/core/include -c waterz/evaluate.cpp -o build/temp.linux-x86_64-cpython-311/waterz/evaluate.o -std=c++11 -w
      waterz/evaluate.cpp:228:12: fatal error: longintrepr.h: No such file or directory
        228 |   #include "longintrepr.h"
            |            ^~~~~~~~~~~~~~~
      compilation terminated.
      error: command '/usr/bin/gcc' failed with exit code 1

Fixed with downgrading to python=3.9 but would be nice if it worked with current python

[tathey1]

@ahillsley which python version worked for you? I got the same longinterpr.h error in 3.12, and got the following errors in 3.9.5 and 3.9.6:

waterz/evaluate.cpp:3429:41: error: no member named 'subarray' in '_PyArray_Descr'
       3429 |     __Pyx_INCREF(((PyObject*)__pyx_v_d->subarray->shape));
            |                              ~~~~~~~~~  ^
      waterz/evaluate.cpp:1214:37: note: expanded from macro '__Pyx_INCREF'
       1214 |   #define __Pyx_INCREF(r) Py_INCREF(r)
            |                                     ^
      /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.9/include/python3.9/object.h:411:49: note: expanded from macro 'Py_INCREF'
        411 | #define Py_INCREF(op) _Py_INCREF(_PyObject_CAST(op))
            |                                                 ^~
      /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.9/include/python3.9/object.h:112:41: note: expanded from macro '_PyObject_CAST'
        112 | #define _PyObject_CAST(op) ((PyObject*)(op))
            |                                         ^~
      waterz/evaluate.cpp:3430:38: error: no member named 'subarray' in '_PyArray_Descr'
       3430 |     __pyx_r = ((PyObject*)__pyx_v_d->subarray->shape);
            |                           ~~~~~~~~~  ^
      waterz/evaluate.cpp:3525:31: error: no member named 'names' in '_PyArray_Descr'
       3525 |   if (unlikely(__pyx_v_descr->names == Py_None)) {
            |                ~~~~~~~~~~~~~  ^
      waterz/evaluate.cpp:835:43: note: expanded from macro 'unlikely'
        835 |   #define unlikely(x) __builtin_expect(!!(x), 0)
            |                                           ^
      waterz/evaluate.cpp:3529:30: error: no member named 'names' in '_PyArray_Descr'
       3529 |   __pyx_t_1 = __pyx_v_descr->names; __Pyx_INCREF(__pyx_t_1); __pyx_t_2 = 0;
            |               ~~~~~~~~~~~~~  ^
      waterz/evaluate.cpp:3548:33: error: no member named 'fields' in '_PyArray_Descr'
       3548 |     if (unlikely(__pyx_v_descr->fields == Py_None)) {
            |                  ~~~~~~~~~~~~~  ^
      waterz/evaluate.cpp:835:43: note: expanded from macro 'unlikely'
        835 |   #define unlikely(x) __builtin_expect(!!(x), 0)
            |                                           ^
      waterz/evaluate.cpp:3552:53: error: no member named 'fields' in '_PyArray_Descr'
       3552 |     __pyx_t_3 = __Pyx_PyDict_GetItem(__pyx_v_descr->fields, __pyx_v_childname); if (unlikely(!__pyx_t_3)) __PYX_ERR(1, 852, __pyx_L1_error)
            |                                      ~~~~~~~~~~~~~  ^
      waterz/evaluate.cpp:3753:81: error: no member named 'elsize' in '_PyArray_Descr'
       3753 |     (__pyx_v_offset[__pyx_t_8]) = ((__pyx_v_offset[__pyx_t_8]) + __pyx_v_child->elsize);
            |                                                                  ~~~~~~~~~~~~~  ^
      7 errors generated.
      error: command '/usr/bin/clang++' failed with exit code 1