[Reproducible-builds] Bug#810709: yt: FTBFS: TypeError: can't pickle Cython.Compiler.FlowControl.NameAssignment objects
Chris Lamb
lamby at debian.org
Mon Jan 11 12:28:57 UTC 2016
Source: yt
Version: 3.2.1-2
Severity: serious
Justification: fails to build from source
User: reproducible-builds at lists.alioth.debian.org
Usertags: ftbfs
X-Debbugs-Cc: reproducible-builds at lists.alioth.debian.org
Dear Maintainer,
yt fails to build from source in unstable/amd64:
[..]
I: pybuild base:184: /usr/bin/python3.5 setup.py build
non-existing path in 'yt/utilities/spatial': 'yt/utilities/spatial/tests'
running build
running config_cc
unifing config_cc, config, build_clib, build_ext, build commands --compiler options
running config_fc
unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options
running build_src
build_src
building py_modules sources
creating build/src.linux-x86_64-3.5
creating build/src.linux-x86_64-3.5/yt
creating build/src.linux-x86_64-3.5/yt/analysis_modules
creating build/src.linux-x86_64-3.5/yt/analysis_modules/cosmological_observation
creating build/src.linux-x86_64-3.5/yt/analysis_modules/cosmological_observation/light_cone
creating build/src.linux-x86_64-3.5/yt/analysis_modules/cosmological_observation/light_ray
creating build/src.linux-x86_64-3.5/yt/analysis_modules/halo_finding
creating build/src.linux-x86_64-3.5/yt/analysis_modules/halo_finding/fof
creating build/src.linux-x86_64-3.5/yt/analysis_modules/halo_finding/hop
creating build/src.linux-x86_64-3.5/yt/analysis_modules/halo_mass_function
creating build/src.linux-x86_64-3.5/yt/analysis_modules/level_sets
creating build/src.linux-x86_64-3.5/yt/analysis_modules/particle_trajectories
creating build/src.linux-x86_64-3.5/yt/analysis_modules/photon_simulator
creating build/src.linux-x86_64-3.5/yt/analysis_modules/spectral_integrator
creating build/src.linux-x86_64-3.5/yt/analysis_modules/star_analysis
creating build/src.linux-x86_64-3.5/yt/analysis_modules/two_point_functions
creating build/src.linux-x86_64-3.5/yt/analysis_modules/sunyaev_zeldovich
creating build/src.linux-x86_64-3.5/yt/analysis_modules/ppv_cube
creating build/src.linux-x86_64-3.5/yt/data_objects
creating build/src.linux-x86_64-3.5/yt/fields
creating build/src.linux-x86_64-3.5/yt/extern
creating build/src.linux-x86_64-3.5/yt/frontends
creating build/src.linux-x86_64-3.5/yt/frontends/art
creating build/src.linux-x86_64-3.5/yt/frontends/artio
creating build/src.linux-x86_64-3.5/yt/frontends/athena
creating build/src.linux-x86_64-3.5/yt/frontends/boxlib
creating build/src.linux-x86_64-3.5/yt/frontends/chombo
creating build/src.linux-x86_64-3.5/yt/frontends/eagle
creating build/src.linux-x86_64-3.5/yt/frontends/enzo
creating build/src.linux-x86_64-3.5/yt/frontends/fits
creating build/src.linux-x86_64-3.5/yt/frontends/flash
creating build/src.linux-x86_64-3.5/yt/frontends/gadget
creating build/src.linux-x86_64-3.5/yt/frontends/gadget_fof
creating build/src.linux-x86_64-3.5/yt/frontends/gdf
creating build/src.linux-x86_64-3.5/yt/frontends/halo_catalog
creating build/src.linux-x86_64-3.5/yt/frontends/http_stream
creating build/src.linux-x86_64-3.5/yt/frontends/moab
creating build/src.linux-x86_64-3.5/yt/frontends/owls
creating build/src.linux-x86_64-3.5/yt/frontends/owls_subfind
creating build/src.linux-x86_64-3.5/yt/frontends/ramses
creating build/src.linux-x86_64-3.5/yt/frontends/rockstar
creating build/src.linux-x86_64-3.5/yt/frontends/sdf
creating build/src.linux-x86_64-3.5/yt/frontends/sph
creating build/src.linux-x86_64-3.5/yt/frontends/stream
creating build/src.linux-x86_64-3.5/yt/frontends/tipsy
creating build/src.linux-x86_64-3.5/yt/geometry
creating build/src.linux-x86_64-3.5/yt/gui
creating build/src.linux-x86_64-3.5/yt/units
creating build/src.linux-x86_64-3.5/yt/utilities
creating build/src.linux-x86_64-3.5/yt/utilities/answer_testing
creating build/src.linux-x86_64-3.5/yt/utilities/grid_data_format
creating build/src.linux-x86_64-3.5/yt/utilities/grid_data_format/conversion
creating build/src.linux-x86_64-3.5/yt/utilities/lib
creating build/src.linux-x86_64-3.5/yt/visualization
creating build/src.linux-x86_64-3.5/yt/visualization/image_panner
creating build/src.linux-x86_64-3.5/yt/visualization/volume_rendering
building extension "yt.analysis_modules.halo_finding.fof.EnzoFOF" sources
building extension "yt.analysis_modules.halo_finding.hop.EnzoHop" sources
building extension "yt.analysis_modules.ppv_cube.ppv_utils" sources
cythonc:> build/src.linux-x86_64-3.5/yt/analysis_modules/ppv_cube/ppv_utils.c
building extension "yt.frontends.artio._artio_caller" sources
cythonc:> build/src.linux-x86_64-3.5/yt/frontends/artio/_artio_caller.c
building extension "yt.geometry.grid_visitors" sources
cythonc:> build/src.linux-x86_64-3.5/yt/geometry/grid_visitors.c
building extension "yt.geometry.grid_container" sources
cythonc:> build/src.linux-x86_64-3.5/yt/geometry/grid_container.c
building extension "yt.geometry.oct_container" sources
cythonc:> build/src.linux-x86_64-3.5/yt/geometry/oct_container.c
building extension "yt.geometry.oct_visitors" sources
cythonc:> build/src.linux-x86_64-3.5/yt/geometry/oct_visitors.c
building extension "yt.geometry.particle_oct_container" sources
cythonc:> build/src.linux-x86_64-3.5/yt/geometry/particle_oct_container.c
building extension "yt.geometry.selection_routines" sources
cythonc:> build/src.linux-x86_64-3.5/yt/geometry/selection_routines.c
warning: yt/frontends/artio/_artio_caller.pyx:1117:8: Unreachable code
warning: yt/geometry/grid_visitors.pyx:45:22: 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/grid_visitors.pyx:45:26: 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/selection_routines.pyx:986:13: Unreachable code
warning: yt/geometry/selection_routines.pyx:489:35: 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/selection_routines.pyx:489:50: 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/selection_routines.pyx:491:20: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
Traceback (most recent call last):
File "setup.py", line 227, in <module>
setup_package()
File "setup.py", line 222, in setup_package
cmdclass={'build_py': my_build_py, 'build_src': my_build_src},
File "/usr/lib/python3/dist-packages/numpy/distutils/core.py", line 169, in setup
return old_setup(**new_attr)
File "/usr/lib/python3.5/distutils/core.py", line 148, in setup
dist.run_commands()
File "/usr/lib/python3.5/distutils/dist.py", line 955, in run_commands
self.run_command(cmd)
File "/usr/lib/python3.5/distutils/dist.py", line 974, in run_command
cmd_obj.run()
File "/usr/lib/python3/dist-packages/numpy/distutils/command/build.py", line 39, in run
old_build.run(self)
File "/usr/lib/python3.5/distutils/command/build.py", line 135, in run
self.run_command(cmd_name)
File "/usr/lib/python3.5/distutils/cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "/usr/lib/python3.5/distutils/dist.py", line 974, in run_command
cmd_obj.run()
File "setup.py", line 150, in run
build_src.build_src.run(self)
File "/usr/lib/python3/dist-packages/numpy/distutils/command/build_src.py", line 153, in run
self.build_sources()
File "/usr/lib/python3/dist-packages/numpy/distutils/command/build_src.py", line 170, in build_sources
self.build_extension_sources(ext)
File "/usr/lib/python3/dist-packages/numpy/distutils/command/build_src.py", line 337, in build_extension_sources
sources = self.pyrex_sources(sources, ext)
File "/usr/lib/python3/dist-packages/numpy/distutils/command/build_src.py", line 460, in pyrex_sources
extension)
File "setup.py", line 105, in generate_a_pyrex_source
options=options)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Main.py", line 677, in compile
return compile_single(source, options, full_module_name)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Main.py", line 630, in compile_single
return run_pipeline(source, options, full_module_name)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Main.py", line 487, in run_pipeline
err, enddata = Pipeline.run_pipeline(pipeline, source)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Pipeline.py", line 328, in run_pipeline
data = phase(data)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Pipeline.py", line 53, in generate_pyx_code_stage
module_node.process_implementation(options, result)
File "/usr/lib/python3/dist-packages/Cython/Compiler/ModuleNode.py", line 118, in process_implementation
self.generate_c_code(env, options, result)
File "/usr/lib/python3/dist-packages/Cython/Compiler/ModuleNode.py", line 339, in generate_c_code
self.body.generate_function_definitions(env, code)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Nodes.py", line 436, in generate_function_definitions
stat.generate_function_definitions(env, code)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Nodes.py", line 436, in generate_function_definitions
stat.generate_function_definitions(env, code)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Nodes.py", line 8770, in generate_function_definitions
self.node.generate_function_definitions(env, code)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Nodes.py", line 4637, in generate_function_definitions
self.body.generate_function_definitions(self.scope, code)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Nodes.py", line 436, in generate_function_definitions
stat.generate_function_definitions(env, code)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Nodes.py", line 1923, in generate_function_definitions
self.generate_function_body(env, code)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Nodes.py", line 1681, in generate_function_body
self.body.generate_execution_code(code)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Nodes.py", line 442, in generate_execution_code
stat.generate_execution_code(code)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Nodes.py", line 7024, in generate_execution_code
fresh_finally_clause().generate_execution_code(code)
File "/usr/lib/python3/dist-packages/Cython/Compiler/Nodes.py", line 7012, in fresh_finally_clause
node_copy = copy.deepcopy(node)
File "/usr/lib/python3.5/copy.py", line 182, in deepcopy
y = _reconstruct(x, rv, 1, memo)
File "/usr/lib/python3.5/copy.py", line 298, in _reconstruct
state = deepcopy(state, memo)
File "/usr/lib/python3.5/copy.py", line 155, in deepcopy
y = copier(x, memo)
File "/usr/lib/python3.5/copy.py", line 244, in _deepcopy_dict
y[deepcopy(key, memo)] = deepcopy(value, memo)
File "/usr/lib/python3.5/copy.py", line 155, in deepcopy
y = copier(x, memo)
File "/usr/lib/python3.5/copy.py", line 219, in _deepcopy_list
y.append(deepcopy(a, memo))
File "/usr/lib/python3.5/copy.py", line 182, in deepcopy
y = _reconstruct(x, rv, 1, memo)
File "/usr/lib/python3.5/copy.py", line 298, in _reconstruct
state = deepcopy(state, memo)
File "/usr/lib/python3.5/copy.py", line 155, in deepcopy
y = copier(x, memo)
File "/usr/lib/python3.5/copy.py", line 244, in _deepcopy_dict
y[deepcopy(key, memo)] = deepcopy(value, memo)
File "/usr/lib/python3.5/copy.py", line 182, in deepcopy
y = _reconstruct(x, rv, 1, memo)
File "/usr/lib/python3.5/copy.py", line 298, in _reconstruct
state = deepcopy(state, memo)
File "/usr/lib/python3.5/copy.py", line 155, in deepcopy
y = copier(x, memo)
File "/usr/lib/python3.5/copy.py", line 244, in _deepcopy_dict
y[deepcopy(key, memo)] = deepcopy(value, memo)
File "/usr/lib/python3.5/copy.py", line 155, in deepcopy
y = copier(x, memo)
File "/usr/lib/python3.5/copy.py", line 219, in _deepcopy_list
y.append(deepcopy(a, memo))
File "/usr/lib/python3.5/copy.py", line 182, in deepcopy
y = _reconstruct(x, rv, 1, memo)
File "/usr/lib/python3.5/copy.py", line 298, in _reconstruct
state = deepcopy(state, memo)
File "/usr/lib/python3.5/copy.py", line 155, in deepcopy
y = copier(x, memo)
File "/usr/lib/python3.5/copy.py", line 244, in _deepcopy_dict
y[deepcopy(key, memo)] = deepcopy(value, memo)
File "/usr/lib/python3.5/copy.py", line 182, in deepcopy
y = _reconstruct(x, rv, 1, memo)
File "/usr/lib/python3.5/copy.py", line 298, in _reconstruct
state = deepcopy(state, memo)
File "/usr/lib/python3.5/copy.py", line 155, in deepcopy
y = copier(x, memo)
File "/usr/lib/python3.5/copy.py", line 244, in _deepcopy_dict
y[deepcopy(key, memo)] = deepcopy(value, memo)
File "/usr/lib/python3.5/copy.py", line 155, in deepcopy
y = copier(x, memo)
File "/usr/lib/python3.5/copy.py", line 219, in _deepcopy_list
y.append(deepcopy(a, memo))
File "/usr/lib/python3.5/copy.py", line 182, in deepcopy
y = _reconstruct(x, rv, 1, memo)
File "/usr/lib/python3.5/copy.py", line 298, in _reconstruct
state = deepcopy(state, memo)
File "/usr/lib/python3.5/copy.py", line 155, in deepcopy
y = copier(x, memo)
File "/usr/lib/python3.5/copy.py", line 244, in _deepcopy_dict
y[deepcopy(key, memo)] = deepcopy(value, memo)
File "/usr/lib/python3.5/copy.py", line 182, in deepcopy
y = _reconstruct(x, rv, 1, memo)
File "/usr/lib/python3.5/copy.py", line 298, in _reconstruct
state = deepcopy(state, memo)
File "/usr/lib/python3.5/copy.py", line 155, in deepcopy
y = copier(x, memo)
File "/usr/lib/python3.5/copy.py", line 244, in _deepcopy_dict
y[deepcopy(key, memo)] = deepcopy(value, memo)
File "/usr/lib/python3.5/copy.py", line 182, in deepcopy
y = _reconstruct(x, rv, 1, memo)
File "/usr/lib/python3.5/copy.py", line 315, in _reconstruct
item = deepcopy(item, memo)
File "/usr/lib/python3.5/copy.py", line 174, in deepcopy
rv = reductor(4)
TypeError: can't pickle Cython.Compiler.FlowControl.NameAssignment objects
E: pybuild pybuild:274: build: plugin distutils failed with: exit code=1: /usr/bin/python3.5 setup.py build
dh_auto_build: pybuild --build --test-nose -i python{version} -p 3.5 3.4 --dir . returned exit code 13
debian/rules:8: recipe for target 'build' failed
make: *** [build] Error 25
[..]
The full build log is attached.
Regards,
--
,''`.
: :' : Chris Lamb
`. `'` lamby at debian.org / chris-lamb.co.uk
`-
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