Build Failure on arch linux [error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘subarray’]

[kbipinkumar]

While attempting to build hdbscan version 0.8.40 under archlinux i am encountering build failure

the build script looks like this

build() {
    cd "${srcdir}"/${_name}-${pkgver}
    python -m build --wheel --no-isolation
}

package() {
    cd "${srcdir}/${_name}-${pkgver}"
    python -m installer --destdir="$pkgdir" dist/*.whl
}

the error out put looks like this

running build_ext
building 'hdbscan._hdbscan_tree' extension
creating build/temp.linux-x86_64-cpython-312/hdbscan
gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O3 -Wall -march=x86-64 -mtune=generic -O3 -pipe -fno-plt -fexceptions -Wp,-D_FORTIFY_SOURCE=3 -Wformat -Werror=format-security -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -g -ffile-prefix-map=/build/python/src=/usr/src/debug/python -flto=auto -ffat-lto-objects -march=x86-64 -mtune=generic -O3 -pipe -fno-plt -fexceptions -Wp,-D_FORTIFY_SOURCE=3 -Wformat -Werror=format-security -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -g -ffile-prefix-map=/build/python/src=/usr/src/debug/python -flto=auto -march=x86-64 -mtune=generic -O3 -pipe -fno-plt -fexceptions -Wp,-D_FORTIFY_SOURCE=3 -Wformat -Werror=format-security -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -g -ffile-prefix-map=/build/python/src=/usr/src/debug/python -flto=auto -march=x86-64 -mtune=generic -O2 -pipe -fno-plt -fexceptions -Wp,-D_FORTIFY_SOURCE=2 -Wformat -Werror=format-security -fstack-clash-protection -fcf-protection -flto=auto -fPIC -I/usr/include/python3.12 -I/usr/lib/python3.12/site-packages/numpy/_core/include -c hdbscan/_hdbscan_tree.c -o build/temp.linux-x86_64-cpython-312/hdbscan/_hdbscan_tree.o
<command-line>: warning: "_FORTIFY_SOURCE" redefined
<command-line>: note: this is the location of the previous definition
In file included from /usr/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h:1909,
                 from /usr/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h:5,
                 from hdbscan/_hdbscan_tree.c:1240:
/usr/lib/python3.12/site-packages/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
In file included from /usr/include/python3.12/Python.h:38,
                 from hdbscan/_hdbscan_tree.c:29:
hdbscan/_hdbscan_tree.c: In function ‘__pyx_f_5numpy_PyDataType_SHAPE’:
hdbscan/_hdbscan_tree.c:19925:39: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘subarray’
19925 |     __Pyx_INCREF(((PyObject*)__pyx_v_d->subarray->shape));
      |                                       ^~
/usr/include/python3.12/pyport.h:24:38: note: in definition of macro ‘_Py_CAST’
   24 | #define _Py_CAST(type, expr) ((type)(expr))
      |                                      ^~~~
/usr/include/python3.12/object.h:661:35: note: in expansion of macro ‘_PyObject_CAST’
  661 | #  define Py_INCREF(op) Py_INCREF(_PyObject_CAST(op))
      |                                   ^~~~~~~~~~~~~~
hdbscan/_hdbscan_tree.c:2184:27: note: in expansion of macro ‘Py_INCREF’
 2184 |   #define __Pyx_INCREF(r) Py_INCREF(r)
      |                           ^~~~~~~~~
hdbscan/_hdbscan_tree.c:19925:5: note: in expansion of macro ‘__Pyx_INCREF’
19925 |     __Pyx_INCREF(((PyObject*)__pyx_v_d->subarray->shape));
      |     ^~~~~~~~~~~~
hdbscan/_hdbscan_tree.c:19926:36: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘subarray’
19926 |     __pyx_r = ((PyObject*)__pyx_v_d->subarray->shape);
      |                                    ^~
error: command '/usr/bin/gcc' failed with exit code 1

detailed build log is here

[user202729]

Likely Cython bug cython/cython#6249