Package: src:adios4dolfinx Version: 0.10.0.post0-4 Severity: serious Tags: ftbfs forky sid
Dear maintainer: During a rebuild of all packages in unstable, this package failed to build. Below you will find the last part of the build log (probably the most relevant part, but not necessarily). If required, the full build log is available here: https://people.debian.org/~sanvila/build-logs/202606/ About the archive rebuild: The build was made on virtual machines from AWS, using sbuild and a reduced chroot with only build-essential packages. If you cannot reproduce the bug please contact me privately, as I am willing to provide ssh access to a virtual machine where the bug is fully reproducible. If this is really a bug in one of the build-depends, please use reassign and add an affects on src:adios4dolfinx, so that this is still visible in the BTS web page for this package. Thanks. -------------------------------------------------------------------------------- [...] debian/rules clean dh clean --with python3 --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with python3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild dh_auto_build -O--buildsystem=pybuild I: pybuild plugin_pyproject:142: Building wheel for python3.14 with "build" module I: pybuild base:385: python3.14 -m build --skip-dependency-check --no-isolation --wheel --outdir /<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_adios4dolfinx * Building wheel... /usr/lib/python3/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsDeprecationWarning: `project.license` as a TOML table is deprecated [... snipped ...] def write_meshtags( filename: typing.Union[Path, str], mesh: dolfinx.mesh.Mesh, meshtags: dolfinx.mesh.MeshTags, engine: str = "BP4", meshtag_name: typing.Optional[str] = None, ): """ Write meshtags associated with input mesh to file. .. note:: For this checkpoint to work, the mesh must be written to file using :func:`write_mesh` before calling this function. Args: filename: Path to save meshtags (with file-extension) mesh: The mesh associated with the meshtags meshtags: The meshtags to write to file engine: Adios2 Engine meshtag_name: Name of the meshtag. If None, the meshtag name is used. """ tag_entities = meshtags.indices dim = meshtags.dim num_tag_entities_local = mesh.topology.index_map(dim).size_local local_tag_entities = tag_entities[tag_entities < num_tag_entities_local] local_values = meshtags.values[: len(local_tag_entities)] num_saved_tag_entities = len(local_tag_entities) local_start = mesh.comm.exscan(num_saved_tag_entities, op=MPI.SUM) local_start = local_start if mesh.comm.rank != 0 else 0 global_num_tag_entities = mesh.comm.allreduce(num_saved_tag_entities, op=MPI.SUM) dof_layout = mesh.geometry.cmap.create_dof_layout() num_dofs_per_entity = dof_layout.num_entity_closure_dofs(dim) entities_to_geometry = dolfinx.cpp.mesh.entities_to_geometry( mesh._cpp_object, dim, local_tag_entities, False ) indices = mesh.geometry.index_map().local_to_global(entities_to_geometry.reshape(-1)) name = meshtag_name or meshtags.name adios = adios2.ADIOS(mesh.comm) with ADIOSFile( adios=adios, filename=filename, mode=adios2.Mode.Append, engine=engine, io_name="MeshTagWriter", ) as adios_file: adios_file.file.BeginStep() # Write meshtag topology topology_var = adios_file.io.DefineVariable( name + "_topology", indices, shape=[global_num_tag_entities, num_dofs_per_entity], start=[local_start, 0], count=[num_saved_tag_entities, num_dofs_per_entity], ) adios_file.file.Put(topology_var, indices, adios2.Mode.Sync) # Write meshtag topology > values_var = adios_file.io.DefineVariable( name + "_values", local_values, shape=[global_num_tag_entities], start=[local_start], count=[num_saved_tag_entities], ) E ValueError: ERROR: variable entity_0_values can't be defined with an object with type <class 'numpy.ndarray'>, in call to DefineVariable /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_adios4dolfinx/build/adios4dolfinx/checkpointing.py:243: ValueError __ test_checkpointing_meshtags_3D[mesh_3D7-read_comm1-GhostMode.shared_facet] __ mesh_3D = <dolfinx.mesh.Mesh object at 0x7feae908a970> read_comm = <mpi4py.MPI.Intracomm object at 0x7feb1db075a0> read_mode = GhostMode.shared_facet tmp_path = PosixPath('/tmp/pytest-of-sbuild/pytest-1/test_checkpointing_meshtags_3D31') @pytest.mark.parametrize("read_mode", read_modes) @pytest.mark.parametrize("read_comm", [MPI.COMM_SELF, MPI.COMM_WORLD]) def test_checkpointing_meshtags_3D(mesh_3D, read_comm, read_mode, tmp_path): mesh = mesh_3D hash = f"{mesh.comm.size}_{mesh.topology.cell_name()}_{mesh.geometry.x.dtype}" fname = MPI.COMM_WORLD.bcast(tmp_path, root=0) filename = fname / f"meshtags_1D_{hash}.bp" if mesh.comm.size != 1: adios4dolfinx.write_mesh(filename, mesh, engine="BP4") else: if MPI.COMM_WORLD.rank == root: adios4dolfinx.write_mesh(filename, mesh, engine="BP4") org_maps = [] for dim in range(mesh.topology.dim + 1): mesh.topology.create_connectivity(dim, mesh.topology.dim) e_map = mesh.topology.index_map(dim) num_entities_local = e_map.size_local entities = np.arange(num_entities_local, dtype=np.int32) ft = dolfinx.mesh.meshtags(mesh, dim, entities, e_map.local_range[0] + entities) ft.name = f"entity_{dim}" if mesh.comm.size != 1: adios4dolfinx.write_meshtags(filename, mesh, ft, engine="BP4") org_map = generate_reference_map(mesh, ft, mesh.comm, root) org_maps.append(org_map) else: if MPI.COMM_WORLD.rank == root: > adios4dolfinx.write_meshtags(filename, mesh, ft, > engine="BP4") /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_adios4dolfinx/build/tests/test_meshtags.py:254: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ filename = PosixPath('/tmp/pytest-of-sbuild/pytest-1/test_checkpointing_meshtags_3D31/meshtags_1D_1_hexahedron_float32.bp') mesh = <dolfinx.mesh.Mesh object at 0x7feae908a970> meshtags = <dolfinx.mesh.MeshTags object at 0x7feae9f095e0>, engine = 'BP4' meshtag_name = None def write_meshtags( filename: typing.Union[Path, str], mesh: dolfinx.mesh.Mesh, meshtags: dolfinx.mesh.MeshTags, engine: str = "BP4", meshtag_name: typing.Optional[str] = None, ): """ Write meshtags associated with input mesh to file. .. note:: For this checkpoint to work, the mesh must be written to file using :func:`write_mesh` before calling this function. Args: filename: Path to save meshtags (with file-extension) mesh: The mesh associated with the meshtags meshtags: The meshtags to write to file engine: Adios2 Engine meshtag_name: Name of the meshtag. If None, the meshtag name is used. """ tag_entities = meshtags.indices dim = meshtags.dim num_tag_entities_local = mesh.topology.index_map(dim).size_local local_tag_entities = tag_entities[tag_entities < num_tag_entities_local] local_values = meshtags.values[: len(local_tag_entities)] num_saved_tag_entities = len(local_tag_entities) local_start = mesh.comm.exscan(num_saved_tag_entities, op=MPI.SUM) local_start = local_start if mesh.comm.rank != 0 else 0 global_num_tag_entities = mesh.comm.allreduce(num_saved_tag_entities, op=MPI.SUM) dof_layout = mesh.geometry.cmap.create_dof_layout() num_dofs_per_entity = dof_layout.num_entity_closure_dofs(dim) entities_to_geometry = dolfinx.cpp.mesh.entities_to_geometry( mesh._cpp_object, dim, local_tag_entities, False ) indices = mesh.geometry.index_map().local_to_global(entities_to_geometry.reshape(-1)) name = meshtag_name or meshtags.name adios = adios2.ADIOS(mesh.comm) with ADIOSFile( adios=adios, filename=filename, mode=adios2.Mode.Append, engine=engine, io_name="MeshTagWriter", ) as adios_file: adios_file.file.BeginStep() # Write meshtag topology topology_var = adios_file.io.DefineVariable( name + "_topology", indices, shape=[global_num_tag_entities, num_dofs_per_entity], start=[local_start, 0], count=[num_saved_tag_entities, num_dofs_per_entity], ) adios_file.file.Put(topology_var, indices, adios2.Mode.Sync) # Write meshtag topology > values_var = adios_file.io.DefineVariable( name + "_values", local_values, shape=[global_num_tag_entities], start=[local_start], count=[num_saved_tag_entities], ) E ValueError: ERROR: variable entity_0_values can't be defined with an object with type <class 'numpy.ndarray'>, in call to DefineVariable /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_adios4dolfinx/build/adios4dolfinx/checkpointing.py:243: ValueError =========================== short test summary info ============================ FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D0-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D0-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D0-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D0-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D1-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D1-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D1-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D1-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D2-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D2-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D2-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D2-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D3-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D3-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D3-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_1D[mesh_1D3-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D0-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D0-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D0-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D0-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D1-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D1-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D1-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D1-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D2-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D2-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D2-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D2-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D3-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D3-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D3-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D3-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D4-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D4-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D4-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D4-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D5-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D5-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D5-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D5-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D6-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D6-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D6-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D6-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D7-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D7-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D7-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_2D[mesh_2D7-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D0-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D0-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D0-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D0-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D1-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D1-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D1-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D1-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D2-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D2-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D2-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D2-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D3-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D3-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D3-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D3-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D4-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D4-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D4-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D4-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D5-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D5-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D5-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D5-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D6-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D6-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D6-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D6-read_comm1-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D7-read_comm0-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D7-read_comm0-GhostMode.shared_facet] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D7-read_comm1-GhostMode.none] FAILED tests/test_meshtags.py::test_checkpointing_meshtags_3D[mesh_3D7-read_comm1-GhostMode.shared_facet] ========== 80 failed, 922 passed, 5 skipped, 180 deselected in 14.40s ========== E: pybuild pybuild:485: test: plugin pyproject failed with: exit code=1: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_adios4dolfinx/build; python3.13 -m pytest -k "not test_original_checkpoint" dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p "3.14 3.13" --parallel=2 returned exit code 13 make: *** [debian/rules:13: binary] Error 25 dpkg-buildpackage: error: debian/rules binary subprocess failed with exit status 2 --------------------------------------------------------------------------------
