Nuitka: macOS: Segfault on module import when using macos

• Tested with Nuitka 0.6.5 and 0.6.6rc7 and Python 3.6.9, 3.7.4 and 3.7.5
• Python version managed by miniconda, rest (primarily Nuitka) managed through a pip -m venv virtual environment.
• macOS 1.14.6 (a coworker just tried macos 1.15.x, same problem)

Minimal example:

Directory mod containing empty __init__.py file. Nuitika run from mod’s parent directory. Afterwards, the mod.so file is moved to different directory where I try to import it.

Same example works fine when running it in a ubuntu:18.04 docker container.

Nuitka run:

(.venv)  % python3 -m nuitka --show-scons --unstripped --debugger --show-modules --module mod
Nuitka:INFO:Included compiled module 'mod'.
Scons command: [...]/.venv/bin/python3 -W ignore [...]/.venv/lib/python3.7/site-packages/nuitka/build/inline_copy/bin/scons.py -f [...]/.venv/lib/python3.7/site-packages/nuitka/build/SingleExe.scons --jobs 8 --warn=no-deprecated --no-site-dir --debug=explain name=mod result_name=mod source_dir=mod.build debug_mode=true python_debug=false unstripped_mode=true module_mode=true full_compat=false experimental= trace_mode=false python_version=3.7 target_arch=x86_64 python_prefix=/usr/local/miniconda3 nuitka_src=[...]/.venv/lib/python3.7/site-packages/nuitka/build nuitka_cache=[...]/Library/Caches/Nuitka module_count=2 show_scons=true abiflags=m
scons: Reading SConscript files ...
Scons: Tools= ['default']
Scons: CC 'gcc' version check:
Scons: CC 'gcc' version check gives '4.2.1' from '4.2.1'
Scons: CC 'cc' version check:
Scons: CC 'cc' version check gives '11.0.0' from 'Apple clang version 11.0.0 (clang-1100.0.33.12)'
Scons: CC 'g++' version check:
Scons: CC 'g++' version check gives '4.2.1' from '4.2.1'
Scons: Initial CC: gcc
Scons: Initial CCVERSION: 4.2.1
Scons: Initial CXX: g++
Scons: Initial CXXVERSION: 4.2.1
Scons: Picked compiler: clang
Scons: Picked name: clang
Scons: Using C11 mode: True
Scons: Compiler used /usr/bin/clang 
Scons: Using resource mode: code
Scons: Told to run compilation on 8 CPUs.
Scons: Launching target: ['mod.so']
scons: done reading SConscript files.
scons: Building targets ...
scons: building `mod.build/module.mod.os' because it doesn't exist
clang -o mod.build/module.mod.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/module.mod.c
scons: building `mod.build/__constants_data.os' because it doesn't exist
clang -o mod.build/__constants_data.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/__constants_data.c
scons: building `mod.build/__constants.os' because it doesn't exist
clang -o mod.build/__constants.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/__constants.c
scons: building `mod.build/__helpers.os' because it doesn't exist
clang -o mod.build/__helpers.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/__helpers.c
scons: building `mod.build/__frozen.os' because it doesn't exist
clang -o mod.build/__frozen.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/__frozen.c
scons: building `mod.build/CompiledCellType.os' because it doesn't exist
clang -o mod.build/CompiledCellType.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/CompiledCellType.c
scons: building `mod.build/CompiledFunctionType.os' because it doesn't exist
clang -o mod.build/CompiledFunctionType.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/CompiledFunctionType.c
scons: building `mod.build/CompiledMethodType.os' because it doesn't exist
clang -o mod.build/CompiledMethodType.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/CompiledMethodType.c
scons: building `mod.build/CompiledGeneratorType.os' because it doesn't exist
clang -o mod.build/CompiledGeneratorType.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/CompiledGeneratorType.c
scons: building `mod.build/CompiledCoroutineType.os' because it doesn't exist
clang -o mod.build/CompiledCoroutineType.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/CompiledCoroutineType.c
scons: building `mod.build/CompiledAsyncgenType.os' because it doesn't exist
clang -o mod.build/CompiledAsyncgenType.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/CompiledAsyncgenType.c
scons: building `mod.build/CompiledFrameType.os' because it doesn't exist
clang -o mod.build/CompiledFrameType.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/CompiledFrameType.c
scons: building `mod.build/CompiledCodeHelpers.os' because it doesn't exist
clang -o mod.build/CompiledCodeHelpers.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/CompiledCodeHelpers.c
scons: building `mod.build/InspectPatcher.os' because it doesn't exist
clang -o mod.build/InspectPatcher.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/InspectPatcher.c
scons: building `mod.build/MetaPathBasedLoader.os' because it doesn't exist
clang -o mod.build/MetaPathBasedLoader.os -c -fvisibility=hidden -std=c11 -fwrapv -w -fvisibility=hidden -fvisibility-inlines-hidden -Wunused-but-set-variable -Wall -Werror -Wno-error=strict-aliasing -Wno-strict-aliasing -Wno-error=format -Wno-format -g -O2 -pipe -fPIC -D_XOPEN_SOURCE -D_NUITKA_SYSFLAG_BYTES_WARNING=0 -D_NUITKA_SYSFLAG_NO_SITE=0 -D_NUITKA_SYSFLAG_VERBOSE=0 -D_NUITKA_SYSFLAG_UTF8=0 -D_NUITKA_SYSFLAG_OPTIMIZE=0 -D_NUITKA_FROZEN=0 -D_NUITKA_MODULE_COUNT=2 -D_NUITKA_MODULE -I/usr/local/miniconda3/include/python3.7m -I/usr/local/miniconda3/PC -Imod.build -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/include -I[...]/.venv/lib/python3.7/site-packages/nuitka/build/static_src mod.build/MetaPathBasedLoader.c
mscons: building `mod.so' because it doesn't exist
clang -o mod.so -dynamiclib mod.build/module.mod.os mod.build/__constants_data.os mod.build/__constants.os mod.build/__helpers.os mod.build/__frozen.os mod.build/CompiledCellType.os mod.build/CompiledFunctionType.os mod.build/CompiledMethodType.os mod.build/CompiledGeneratorType.os mod.build/CompiledCoroutineType.os mod.build/CompiledAsyncgenType.os mod.build/CompiledFrameType.os mod.build/CompiledCodeHelpers.os mod.build/InspectPatcher.os mod.build/MetaPathBasedLoader.os -L/usr/local/miniconda3/lib -lm -lpython3.7m
scons: done building targets.

Error:

(.venv)  % python -q -X faulthandler 
>>> import mod
Fatal Python error: Segmentation fault

Current thread 0x00000001088b85c0 (most recent call first):
  File "<frozen importlib._bootstrap>", line 219 in _call_with_frames_removed
  File "<frozen importlib._bootstrap_external>", line 1043 in create_module
  File "<frozen importlib._bootstrap>", line 583 in module_from_spec
  File "<frozen importlib._bootstrap>", line 670 in _load_unlocked
  File "<frozen importlib._bootstrap>", line 967 in _find_and_load_unlocked
  File "<frozen importlib._bootstrap>", line 983 in _find_and_load
  File "<stdin>", line 1 in <module>
[1]    21766 segmentation fault  python -q -X faulthandler

Expectation (which works when directly importing the empty module):

(.venv)  % python
Python 3.7.4 (default, Aug 13 2019, 15:17:50) 
[Clang 4.0.1 (tags/RELEASE_401/final)] :: Anaconda, Inc. on darwin
Type "help", "copyright", "credits" or "license" for more information.
>>> import mod
>>>