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Published
20 hours ago •
yt-project
yt-project
BLD: Cython 3 compatibility
Bug report
Bug summary
I report that I've attempted to build yt from source with Cython 3.0 (alpha8) and got the following error. I don't think that fixing this urgent (or necessary ?) but it probably should be discussed or addressed at some point.
Traceback
Obtaining file:///Users/robcleme/dev/yt-project/yt-py310
Preparing wheel metadata ... error
ERROR: Command errored out with exit status 1:
command: /Users/robcleme/.pyenv/versions/yt-py310/bin/python /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py prepare_metadata_for_build_wheel /var/folders/xh/yfmp7l9n3x50ln2yvrndt7c801pbkm/T/tmpfctihuv8
cwd: /Users/robcleme/dev/yt-project/yt-py310
Complete output (281 lines):
Unable to compile OpenMP test program so Cython
extensions will be compiled without parallel support
running dist_info
creating /private/var/folders/xh/yfmp7l9n3x50ln2yvrndt7c801pbkm/T/pip-modern-metadata-ty2wpdmk/yt.egg-info
writing /private/var/folders/xh/yfmp7l9n3x50ln2yvrndt7c801pbkm/T/pip-modern-metadata-ty2wpdmk/yt.egg-info/PKG-INFO
writing dependency_links to /private/var/folders/xh/yfmp7l9n3x50ln2yvrndt7c801pbkm/T/pip-modern-metadata-ty2wpdmk/yt.egg-info/dependency_links.txt
writing entry points to /private/var/folders/xh/yfmp7l9n3x50ln2yvrndt7c801pbkm/T/pip-modern-metadata-ty2wpdmk/yt.egg-info/entry_points.txt
writing requirements to /private/var/folders/xh/yfmp7l9n3x50ln2yvrndt7c801pbkm/T/pip-modern-metadata-ty2wpdmk/yt.egg-info/requires.txt
writing top-level names to /private/var/folders/xh/yfmp7l9n3x50ln2yvrndt7c801pbkm/T/pip-modern-metadata-ty2wpdmk/yt.egg-info/top_level.txt
writing manifest file '/private/var/folders/xh/yfmp7l9n3x50ln2yvrndt7c801pbkm/T/pip-modern-metadata-ty2wpdmk/yt.egg-info/SOURCES.txt'
Compiling yt/geometry/fake_octree.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/geometry/grid_container.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/geometry/grid_visitors.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/geometry/oct_container.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/geometry/oct_visitors.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/geometry/particle_deposit.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/numpy/math.pxd.
Compiling yt/geometry/particle_oct_container.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/numpy/math.pxd.
Compiling yt/geometry/particle_smooth.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/numpy/math.pxd.
Compiling yt/geometry/selection_routines.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/cython_fortran_utils.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/frontends/ramses/io_utils.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/cykdtree/kdtree.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libcpp/vector.pxd.
Compiling yt/utilities/lib/cykdtree/utils.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libcpp/vector.pxd.
Compiling yt/frontends/artio/_artio_caller.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/numpy/math.pxd.
Compiling yt/utilities/lib/_octree_raytracing.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libcpp/vector.pxd.
Compiling yt/utilities/lib/allocation_container.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/alt_ray_tracers.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/amr_kdtools.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/autogenerated_element_samplers.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/math.pxd.
Compiling yt/utilities/lib/basic_octree.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/bitarray.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/bounded_priority_queue.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/bounding_volume_hierarchy.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/contour_finding.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/cosmology_time.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/cyoctree.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/numpy/math.pxd.
Compiling yt/utilities/lib/depth_first_octree.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/distance_queue.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/element_mappings.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/ewah_bool_wrap.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libcpp/vector.pxd.
Compiling yt/utilities/lib/fnv_hash.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/fortran_reader.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/geometry_utils.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/grid_traversal.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/image_samplers.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libcpp/vector.pxd.
Compiling yt/utilities/lib/image_utilities.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/interpolators.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/lenses.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/line_integral_convolution.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/marching_cubes.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/mesh_triangulation.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/mesh_utilities.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/misc_utilities.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/origami.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/particle_kdtree_tools.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/numpy/math.pxd.
Compiling yt/utilities/lib/particle_mesh_operations.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/partitioned_grid.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/pixelization_routines.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/numpy/math.pxd.
Compiling yt/utilities/lib/points_in_volume.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/primitives.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/quad_tree.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/ragged_arrays.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Compiling yt/utilities/lib/write_array.pyx because it depends on /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Includes/libc/string.pxd.
Error compiling Cython file:
------------------------------------------------------------
...
fields = None, int domain_id = -1,
int domain_offset = 0,
periodicity = (True, True, True),
index_fields = None,
OctreeContainer particle_octree = None,
np.int64_t [:] pdom_ind = None,
^
------------------------------------------------------------
yt/geometry/particle_smooth.pyx:62:47: Compiler crash in AnalyseExpressionsTransform
File 'Nodes.py', line 396, in analyse_expressions: StatListNode(particle_smooth.pyx:12:0)
File 'Nodes.py', line 396, in analyse_expressions: StatListNode(particle_smooth.pyx:34:5)
File 'Nodes.py', line 5233, in analyse_expressions: CClassDefNode(particle_smooth.pyx:34:5,
as_name = 'ParticleSmoothOperation',
class_name = 'ParticleSmoothOperation',
module_name = '',
punycode_class_name = 'ParticleSmoothOperation',
visibility = 'private')
File 'Nodes.py', line 396, in analyse_expressions: StatListNode(particle_smooth.pyx:35:4)
File 'Nodes.py', line 340, in analyse_expressions: CompilerDirectivesNode(particle_smooth.pyx:49:4)
File 'Nodes.py', line 396, in analyse_expressions: StatListNode(particle_smooth.pyx:49:4)
File 'Nodes.py', line 5707, in analyse_expressions: SingleAssignmentNode(particle_smooth.pyx:49:4)
File 'Nodes.py', line 5827, in analyse_types: SingleAssignmentNode(particle_smooth.pyx:49:4)
File 'ExprNodes.py', line 9395, in analyse_types: PyCFunctionNode(particle_smooth.pyx:49:4,
binding = True,
is_temp = 1,
pymethdef_cname = '__pyx_mdef_2yt_8geometry_15particle_smooth_23ParticleSmoothOperation_7process_octree',
result_is_used = True,
use_managed_ref = True)
File 'ExprNodes.py', line 9478, in analyse_default_args: PyCFunctionNode(particle_smooth.pyx:49:4,
binding = True,
is_temp = 1,
pymethdef_cname = '__pyx_mdef_2yt_8geometry_15particle_smooth_23ParticleSmoothOperation_7process_octree',
result_is_used = True,
use_managed_ref = True)
File 'ExprNodes.py', line 8069, in analyse_types: TupleNode(particle_smooth.pyx:49:4,
is_sequence_constructor = 1,
result_is_used = True,
use_managed_ref = True)
File 'ExprNodes.py', line 719, in analyse_types: CoerceToMemViewSliceNode(particle_smooth.pyx:62:47,
is_temp = 1,
result_is_used = True,
use_managed_ref = True)
File 'ExprNodes.py', line 486, in not_implemented: CoerceToMemViewSliceNode(particle_smooth.pyx:62:47,
is_temp = 1,
result_is_used = True,
use_managed_ref = True)
Compiler crash traceback from this point on:
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Compiler/ExprNodes.py", line 486, in not_implemented
raise InternalError(
InternalError: Internal compiler error: CoerceToMemViewSliceNode.analyse_types not implemented
Traceback (most recent call last):
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Build/Dependencies.py", line 1307, in cythonize_one_helper
return cythonize_one(*m)
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Build/Dependencies.py", line 1283, in cythonize_one
raise CompileError(None, pyx_file)
Cython.Compiler.Errors.CompileError: yt/geometry/particle_smooth.pyx
warning: yt/geometry/particle_oct_container.pyx:847:33: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: yt/geometry/particle_oct_container.pyx:847:46: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
multiprocessing.pool.RemoteTraceback:
"""
Traceback (most recent call last):
File "/Users/robcleme/.pyenv/versions/3.10.0b2/lib/python3.10/multiprocessing/pool.py", line 125, in worker
result = (True, func(*args, **kwds))
File "/Users/robcleme/.pyenv/versions/3.10.0b2/lib/python3.10/multiprocessing/pool.py", line 48, in mapstar
return list(map(*args))
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Build/Dependencies.py", line 1307, in cythonize_one_helper
return cythonize_one(*m)
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Build/Dependencies.py", line 1283, in cythonize_one
raise CompileError(None, pyx_file)
Cython.Compiler.Errors.CompileError: yt/geometry/particle_smooth.pyx
"""
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 280, in <module>
[ 8/53] Cythonizing yt/geometry/grid_container.pyx
[20/53] Cythonizing yt/utilities/lib/basic_octree.pyx
[26/53] Cythonizing yt/utilities/lib/cykdtree/kdtree.pyx
[43/53] Cythonizing yt/utilities/lib/mesh_utilities.pyx
[ 3/53] Cythonizing yt/utilities/lib/cykdtree/utils.pyx
[16/53] Cythonizing yt/utilities/cython_fortran_utils.pyx
[19/53] Cythonizing yt/utilities/lib/amr_kdtools.pyx
[33/53] Cythonizing yt/utilities/lib/fortran_reader.pyx
[38/53] Cythonizing yt/utilities/lib/interpolators.pyx
[42/53] Cythonizing yt/utilities/lib/mesh_triangulation.pyx
[ 7/53] Cythonizing yt/geometry/fake_octree.pyx
[17/53] Cythonizing yt/utilities/lib/allocation_container.pyx
[31/53] Cythonizing yt/utilities/lib/ewah_bool_wrap.pyx
[ 5/53] Cythonizing yt/frontends/artio/_artio_caller.pyx
[29/53] Cythonizing yt/utilities/lib/distance_queue.pyx
[36/53] Cythonizing yt/utilities/lib/image_samplers.pyx
main()
[ 1/53] Cythonizing yt/utilities/lib/_octree_raytracing.pyx
[15/53] Cythonizing yt/geometry/selection_routines.pyx
[49/53] Cythonizing yt/utilities/lib/points_in_volume.pyx
[53/53] Cythonizing yt/utilities/lib/write_array.pyx
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 263, in main
[ 4/53] Cythonizing yt/utilities/lib/misc_utilities.pyx
[28/53] Cythonizing yt/utilities/lib/depth_first_octree.pyx
[32/53] Cythonizing yt/utilities/lib/fnv_hash.pyx
[40/53] Cythonizing yt/utilities/lib/line_integral_convolution.pyx
[46/53] Cythonizing yt/utilities/lib/particle_mesh_operations.pyx
[12/53] Cythonizing yt/geometry/particle_deposit.pyx
[25/53] Cythonizing yt/utilities/lib/cosmology_time.pyx
[30/53] Cythonizing yt/utilities/lib/element_mappings.pyx
[35/53] Cythonizing yt/utilities/lib/grid_traversal.pyx
[51/53] Cythonizing yt/utilities/lib/quad_tree.pyx
[10/53] Cythonizing yt/geometry/oct_container.pyx
[24/53] Cythonizing yt/utilities/lib/contour_finding.pyx
[44/53] Cythonizing yt/utilities/lib/origami.pyx
[47/53] Cythonizing yt/utilities/lib/partitioned_grid.pyx
[50/53] Cythonizing yt/utilities/lib/primitives.pyx
[ 6/53] Cythonizing yt/frontends/ramses/io_utils.pyx
[18/53] Cythonizing yt/utilities/lib/alt_ray_tracers.pyx
[22/53] Cythonizing yt/utilities/lib/bounded_priority_queue.pyx
[34/53] Cythonizing yt/utilities/lib/geometry_utils.pyx
[11/53] Cythonizing yt/geometry/oct_visitors.pyx
[27/53] Cythonizing yt/utilities/lib/cyoctree.pyx
[45/53] Cythonizing yt/utilities/lib/particle_kdtree_tools.pyx
[ 9/53] Cythonizing yt/geometry/grid_visitors.pyx
[13/53] Cythonizing yt/geometry/particle_oct_container.pyx
[39/53] Cythonizing yt/utilities/lib/lenses.pyx
[52/53] Cythonizing yt/utilities/lib/ragged_arrays.pyx
json_out['return_val'] = hook(**hook_input['kwargs'])
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 133, in prepare_metadata_for_build_wheel
return hook(metadata_directory, config_settings)
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/setuptools/build_meta.py", line 166, in prepare_metadata_for_build_wheel
[ 2/53] Cythonizing yt/utilities/lib/autogenerated_element_samplers.pyx
[14/53] Cythonizing yt/geometry/particle_smooth.pyx
analyse_types not implemented
Called from: CoerceToMemViewSliceNode.not_implemented 485
Called from: CoerceToMemViewSliceNode.analyse_types 719
Called from: TupleNode.analyse_types 8069
Called from: PyCFunctionNode.analyse_default_args 9478
Called from: PyCFunctionNode.analyse_types 9395
Called from: SingleAssignmentNode.analyse_types 5827
Called from: SingleAssignmentNode.analyse_expressions 5707
Called from: <listcomp> 396
Called from: StatListNode.analyse_expressions 396
Called from: CompilerDirectivesNode.analyse_expressions 340
Called from: <listcomp> 396
Called from: StatListNode.analyse_expressions 396
Called from: CClassDefNode.analyse_expressions 5233
Called from: <listcomp> 396
Called from: StatListNode.analyse_expressions 396
Called from: <listcomp> 396
Called from: StatListNode.analyse_expressions 396
Called from: AnalyseExpressionsTransform.visit_ModuleNode 2351
Called from: AnalyseExpressionsTransform._visit 180
Called from: AnalyseExpressionsTransform.__call__ 284
Called from: AnalyseExpressionsTransform.__call__ 302
Called from: run 352
Called from: run_pipeline 372
Called from: run_pipeline 505
Called from: compile_single 577
Called from: cythonize_one 1262
Called from: cythonize_one_helper 1307
Called from: mapstar 48
Called from: worker 125
Called from: SpawnProcess.run 108
Called from: SpawnProcess._bootstrap 315
Called from: SpawnProcess._main 129
Called from: spawn_main 116
Called from: <module> 1
----------------------------------------------------------------------
[21/53] Cythonizing yt/utilities/lib/bitarray.pyx
[23/53] Cythonizing yt/utilities/lib/bounding_volume_hierarchy.pyx
[37/53] Cythonizing yt/utilities/lib/image_utilities.pyx
[41/53] Cythonizing yt/utilities/lib/marching_cubes.pyx
[48/53] Cythonizing yt/utilities/lib/pixelization_routines.pyx
self.run_setup()
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/setuptools/build_meta.py", line 258, in run_setup
super(_BuildMetaLegacyBackend,
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/setuptools/build_meta.py", line 150, in run_setup
exec(compile(code, __file__, 'exec'), locals())
File "setup.py", line 89, in <module>
setup(
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/setuptools/__init__.py", line 153, in setup
return distutils.core.setup(**attrs)
File "/Users/robcleme/.pyenv/versions/3.10.0b2/lib/python3.10/distutils/core.py", line 148, in setup
dist.run_commands()
File "/Users/robcleme/.pyenv/versions/3.10.0b2/lib/python3.10/distutils/dist.py", line 966, in run_commands
self.run_command(cmd)
File "/Users/robcleme/.pyenv/versions/3.10.0b2/lib/python3.10/distutils/dist.py", line 985, in run_command
cmd_obj.run()
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/setuptools/command/dist_info.py", line 31, in run
egg_info.run()
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/setuptools/command/egg_info.py", line 299, in run
self.find_sources()
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/setuptools/command/egg_info.py", line 306, in find_sources
mm.run()
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/setuptools/command/egg_info.py", line 541, in run
self.add_defaults()
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/setuptools/command/egg_info.py", line 578, in add_defaults
sdist.add_defaults(self)
File "/Users/robcleme/.pyenv/versions/3.10.0b2/lib/python3.10/distutils/command/sdist.py", line 228, in add_defaults
self._add_defaults_ext()
File "/Users/robcleme/.pyenv/versions/3.10.0b2/lib/python3.10/distutils/command/sdist.py", line 311, in _add_defaults_ext
build_ext = self.get_finalized_command('build_ext')
File "/Users/robcleme/.pyenv/versions/3.10.0b2/lib/python3.10/distutils/cmd.py", line 299, in get_finalized_command
cmd_obj.ensure_finalized()
File "/Users/robcleme/.pyenv/versions/3.10.0b2/lib/python3.10/distutils/cmd.py", line 107, in ensure_finalized
self.finalize_options()
File "/Users/robcleme/dev/yt-project/yt-py310/setupext.py", line 403, in finalize_options
self.distribution.ext_modules[:] = cythonize(
File "/Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/Cython/Build/Dependencies.py", line 1107, in cythonize
result.get(99999) # seconds
File "/Users/robcleme/.pyenv/versions/3.10.0b2/lib/python3.10/multiprocessing/pool.py", line 771, in get
raise self._value
Cython.Compiler.Errors.CompileError: yt/geometry/particle_smooth.pyx
----------------------------------------
WARNING: Discarding file:///Users/robcleme/dev/yt-project/yt-py310. Command errored out with exit status 1: /Users/robcleme/.pyenv/versions/yt-py310/bin/python /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py prepare_metadata_for_build_wheel /var/folders/xh/yfmp7l9n3x50ln2yvrndt7c801pbkm/T/tmpfctihuv8 Check the logs for full command output.
ERROR: Command errored out with exit status 1: /Users/robcleme/.pyenv/versions/yt-py310/bin/python /Users/robcleme/.pyenv/versions/yt-py310/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py prepare_metadata_for_build_wheel /var/folders/xh/yfmp7l9n3x50ln2yvrndt7c801pbkm/T/tmpfctihuv8 Check the logs for full command output.
Code for reproduction
python -m pip install -pre cython
python -m pip install -e --no-build-isolation .
Version Information
- Operating System: OsX
- Python Version: 3.10.0a2 (yt is known to compile fine with it + Cython 0.29.21, so I don't think that the issue lie here.)
- yt version: main branch (419a8eb0ddc7bcee6abcf92eed1fbbedace1d60d)
Note: this is a Cython bug, which has been reported upstream (see https://github.com/cython/cython/issues/4313) and there is an open PR to fix this as well (https://github.com/cython/cython/pull/4315).
Excellent, thank you ! Once it resolved upstream we can add Cython 3.0 to the "bleeding edge" CI job
Note: switching to Cython 3 will silence deprecation warnings we get at build time from numpy, see https://github.com/cython/cython/issues/2498
not sure there's anything we can/should do actually. Right now there's a single bug we know off that's blocking us, and Corentin already opened a PR to fix it upstream, so AFAIK all we have to do is wait.
@cphyc's PR was merged ! I checked that it works properly, though we probably shouldn't declare compatibility before numpy does, and they are waiting on pypy 7.3.8, see https://github.com/numpy/numpy/blob/138963bd61e4d6e82261ae8c8db98394b69fe3f5/pyproject.toml#L7