astropy / astropy/ccdproc

reproject compilation fails on Fedora 39

Open
#813 0 comments 0 reactions 0 assignees View on GitHub
Dominant language
Python
Stars
93
Forks
92
Avg merge
14h 44m
Merged PRs (30d)
30

Description

I'm trying to reinstall ccdproc after upgrading to Fedora 39. Worked fine on 38.
My astropy is 5.3.2, numpy 1.26.2, cython 3.0.2. gcc 13.2.1
When I pip install ccdproc I get the following failure. Why is it not finding ob_digit??

building 'reproject.spherical_intersect._overlap' extension
creating build/temp.linux-x86_64-cpython-312
creating build/temp.linux-x86_64-cpython-312/reproject
creating build/temp.linux-x86_64-cpython-312/reproject/spherical_intersect
gcc -fno-strict-overflow -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -fcf-protection -fexceptions -fcf-protection -fexceptions -fcf-protection -fexceptions -fPIC -I/tmp/pip-build-env-2yq55aik/overlay/lib64/python3.12/site-packages/numpy/core/include -Ireproject/spherical_intersect -I/usr/include/python3.12 -c reproject/spherical_intersect/_overlap.c -o build/temp.linux-x86_64-cpython-312/reproject/spherical_intersect/_overlap.o -O2
In file included from /tmp/pip-build-env-2yq55aik/overlay/lib64/python3.12/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929,
from /tmp/pip-build-env-2yq55aik/overlay/lib64/python3.12/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
from /tmp/pip-build-env-2yq55aik/overlay/lib64/python3.12/site-packages/numpy/core/include/numpy/arrayobject.h:5,
from reproject/spherical_intersect/_overlap.c:746:
/tmp/pip-build-env-2yq55aik/overlay/lib64/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 " \
| ^~~~~~~
reproject/spherical_intersect/_overlap.c: In function ‘__pyx_pf_9reproject_19spherical_intersect_8_overlap__reproject_slice_cython’:
reproject/spherical_intersect/_overlap.c:2225:3: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
2225 | __Pyx_GetModuleGlobalName(__pyx_t_1, __pyx_n_s_np); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 30, __pyx_L1_error)
| ^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/python3.12/dictobject.h:90,
from /usr/include/python3.12/Python.h:61,
from reproject/spherical_intersect/_overlap.c:6:
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c:2237:3: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
2237 | __Pyx_GetModuleGlobalName(__pyx_t_4, __pyx_n_s_np); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 30, __pyx_L1_error)
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c:2270:3: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
2270 | __Pyx_GetModuleGlobalName(__pyx_t_5, __pyx_n_s_np); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 31, __pyx_L1_error)
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c:2282:3: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
2282 | __Pyx_GetModuleGlobalName(__pyx_t_2, __pyx_n_s_np); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 31, __pyx_L1_error)
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c: In function ‘__pyx_pf_9reproject_19spherical_intersect_8_overlap_2_compute_overlap’:
reproject/spherical_intersect/_overlap.c:2790:3: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
2790 | __Pyx_GetModuleGlobalName(__pyx_t_1, __pyx_n_s_np); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 58, __pyx_L1_error)
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c:2804:3: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
2804 | __Pyx_GetModuleGlobalName(__pyx_t_4, __pyx_n_s_np); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 58, __pyx_L1_error)
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c:2837:3: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
2837 | __Pyx_GetModuleGlobalName(__pyx_t_5, __pyx_n_s_np); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 59, __pyx_L1_error)
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c:2851:3: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
2851 | __Pyx_GetModuleGlobalName(__pyx_t_2, __pyx_n_s_np); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 59, __pyx_L1_error)
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c: In function ‘__Pyx_get_tp_dict_version’:
reproject/spherical_intersect/_overlap.c:5413:5: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
5413 | return likely(dict) ? __PYX_GET_DICT_VERSION(dict) : 0;
| ^~~~~~
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c: In function ‘__Pyx_get_object_dict_version’:
reproject/spherical_intersect/_overlap.c:5425:5: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
5425 | return (dictptr && *dictptr) ? __PYX_GET_DICT_VERSION(*dictptr) : 0;
| ^~~~~~
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c: In function ‘__Pyx_object_dict_version_matches’:
reproject/spherical_intersect/_overlap.c:5429:5: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
5429 | if (unlikely(!dict) || unlikely(tp_dict_version != __PYX_GET_DICT_VERSION(dict)))
| ^~
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c: In function ‘__Pyx__GetModuleGlobalName’:
reproject/spherical_intersect/_overlap.c:5446:5: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
5446 | __PYX_UPDATE_DICT_CACHE(__pyx_d, result, *dict_cached_value, *dict_version)
| ^~~~~~~~~~~~~~~~~~~~~~~
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c: In function ‘__Pyx_Raise’:
reproject/spherical_intersect/_overlap.c:5875:34: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’
5875 | PyObject* tmp_tb = tstate->curexc_traceback;
| ^~
reproject/spherical_intersect/_overlap.c:5878:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’
5878 | tstate->curexc_traceback = tb;
| ^~
reproject/spherical_intersect/_overlap.c: In function ‘__Pyx_CLineForTraceback’:
reproject/spherical_intersect/_overlap.c:6030:9: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
6030 | __PYX_PY_DICT_LOOKUP_IF_MODIFIED(
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c:6030:9: warning: ‘ma_version_tag’ is deprecated [-Wdeprecated-declarations]
6030 | __PYX_PY_DICT_LOOKUP_IF_MODIFIED(
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/python3.12/cpython/dictobject.h:22:34: note: declared here
22 | Py_DEPRECATED(3.12) uint64_t ma_version_tag;
| ^~~~~~~~~~~~~~
reproject/spherical_intersect/_overlap.c: In function ‘__Pyx_PyInt_As_int’:
reproject/spherical_intersect/_overlap.c:6621:53: error: ‘PyLongObject’ {aka ‘struct _longobject’} has no member named ‘ob_digit’
6621 | const digit* digits = ((PyLongObject*)x)->ob_digit;
| ^~
reproject/spherical_intersect/_overlap.c:6676:53: error: ‘PyLongObject’ {aka ‘struct _longobject’} has no member named ‘ob_digit’
6676 | const digit* digits = ((PyLongObject*)x)->ob_digit;
| ^~
reproject/spherical_intersect/_overlap.c: In function ‘__Pyx_PyInt_As_long’:
reproject/spherical_intersect/_overlap.c:6893:53: error: ‘PyLongObject’ {aka ‘struct _longobject’} has no member named ‘ob_digit’
6893 | const digit* digits = ((PyLongObject*)x)->ob_digit;
| ^~
reproject/spherical_intersect/_overlap.c:6948:53: error: ‘PyLongObject’ {aka ‘struct _longobject’} has no member named ‘ob_digit’
6948 | const digit* digits = ((PyLongObject*)x)->ob_digit;
| ^~
reproject/spherical_intersect/_overlap.c: In function ‘__Pyx_PyIndex_AsSsize_t’:
reproject/spherical_intersect/_overlap.c:7399:45: error: ‘PyLongObject’ {aka ‘struct _longobject’} has no member named ‘ob_digit’
7399 | const digit* digits = ((PyLongObject*)b)->ob_digit;
| ^~
error: command '/usr/bin/gcc' failed with exit code 1
[end of output]

note: This error originates from a subprocess, and is likely not a problem with pip.
ERROR: Failed building wheel for reproject
Failed to build reproject
ERROR: Could not build wheels for reproject, which is required to install pyproject.toml-based projects

Contributor guide

Open the contributing guide

Research direction

Start with the reported pip install ccdproc build on Fedora 39 using Python 3.12, then inspect the generated reproject/spherical_intersect/_overlap.c compilation errors involving PyThreadState and PyLongObject. Compare the Python, NumPy, Cython, and reproject versions in the report with supported combinations. Done means identifying the incompatible dependency or build path and confirming that ccdproc installs successfully.

Written by the indexing model from the issue text.

Assessment

Tech stack
numpy, python
Domain
build-system
Issue type
Bug
Difficulty
3/5
Estimated time
1-2 days
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
25/100

Get new issues in your inbox

A short digest of beginner-friendly GitHub issues.