Issue with sitkImageFileReader.cxx.o while building for Linux aarch 64

[LightEssembly]

Hi everyone,

I have got a Nvidia Jetson TX2 with the following specs: Processor: ARMv8 rev 3 (v8l) x 4 Graphics: NVIDIA Tegra X2 GNOME: 3.28.2 OS Type: 64 bit

After having no luck installing SimpleITK with pip, I have attempted building it with following code that I took from here: pip install git+https://github.com/SimpleITK/SimpleITKPythonPackage.git -v

The installation almost finished but then it produced the following error: ` [961/974] Building CXX object Code/BasicFilters/src/CMakeFiles/SimpleITK_ITKWatersheds.dir/sitkMorphologicalWatershedFromMarkersImageFilter.cxx.o [962/974] Building CXX object Code/BasicFilters/src/CMakeFiles/SimpleITK_SimpleITKFilters.dir/sitkPasteImageFilter.cxx.o [963/974] Building CXX object Code/IO/src/CMakeFiles/SimpleITKIO.dir/sitkImageFileReader.cxx.o ninja: build stopped: subcommand failed. FAILED: SimpleITK-prefix/src/SimpleITK-stamp/SimpleITK-build /tmp/pip-pctnm39_-build/skbuild/linux-aarch64-3.6/cmake-build/sitk-sb/SimpleITK-prefix/src/SimpleITK-stamp/SimpleITK-build cd /tmp/pip-pctnm39-build/skbuild/linux-aarch64-3.6/cmake-build/sitk-sb/SimpleITK-build && /home/tentacools/.local/lib/python3.6/site-packages/cmake/data/bin/cmake --build . && /home/tentacools/.local/lib/python3.6/site-packages/cmake/data/bin/cmake -E touch /tmp/pip-pctnm39-build/skbuild/linux-aarch64-3.6/cmake-build/sitk-sb/SimpleITK-prefix/src/SimpleITK-stamp/SimpleITK-build ninja: build stopped: subcommand failed. FAILED: SimpleITK-superbuild-prefix/src/SimpleITK-superbuild-stamp/SimpleITK-superbuild-build /tmp/pip-pctnm39-build/skbuild/linux-aarch64-3.6/cmake-build/SimpleITK-superbuild-prefix/src/SimpleITK-superbuild-stamp/SimpleITK-superbuild-build cd /tmp/pip-pctnm39-build/skbuild/linux-aarch64-3.6/cmake-build/sitk-sb && /home/tentacools/.local/lib/python3.6/site-packages/cmake/data/bin/cmake --build . && /home/tentacools/.local/lib/python3.6/site-packages/cmake/data/bin/cmake -E touch /tmp/pip-pctnm39-build/_skbuild/linux-aarch64-3.6/cmake-build/SimpleITK-superbuild-prefix/src/SimpleITK-superbuild-stamp/SimpleITK-superbuild-build ninja: build stopped: subcommand failed. Traceback (most recent call last): File "/home/tentacools/Desktop/bronchinet/bronvenv/lib/python3.6/site-packages/skbuild/setuptools_wrap.py", line 593, in setup cmkr.make(make_args, env=env) File "/home/tentacools/Desktop/bronchinet/bronvenv/lib/python3.6/site-packages/skbuild/cmaker.py", line 515, in make os.path.abspath(CMAKE_BUILD_DIR())))

An error occurred while building with CMake.
  Command:
    cmake --build . --target install --config Release --
  Source directory:
    /tmp/pip-pctnm39_-build
  Working directory:
    /tmp/pip-pctnm39_-build/_skbuild/linux-aarch64-3.6/cmake-build
Please see CMake's output for more information.

error Cleaning up... Removing source in /tmp/pip-pctnm39_-build Command "/home/tentacools/Desktop/bronchinet/bronvenv/bin/python3 -u -c "import setuptools, tokenize;file='/tmp/pip-pctnm39_-build/setup.py';f=getattr(tokenize, 'open', open)(file);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, file, 'exec'))" install --record /tmp/pip-4m65moo9-record/install-record.txt --single-version-externally-managed --compile --install-headers /home/tentacools/Desktop/bronchinet/bronvenv/include/site/python3.6/SimpleITK" failed with error code 1 in /tmp/pip-pctnm39_-build/ Exception information: Traceback (most recent call last): File "/home/tentacools/Desktop/bronchinet/bronvenv/lib/python3.6/site-packages/pip/basecommand.py", line 215, in main status = self.run(options, args) File "/home/tentacools/Desktop/bronchinet/bronvenv/lib/python3.6/site-packages/pip/commands/install.py", line 360, in run prefix=options.prefix_path, File "/home/tentacools/Desktop/bronchinet/bronvenv/lib/python3.6/site-packages/pip/req/req_set.py", line 784, in install **kwargs File "/home/tentacools/Desktop/bronchinet/bronvenv/lib/python3.6/site-packages/pip/req/req_install.py", line 878, in install spinner=spinner, File "/home/tentacools/Desktop/bronchinet/bronvenv/lib/python3.6/site-packages/pip/utils/init.py", line 725, in call_subprocess % (command_desc, proc.returncode, cwd)) pip.exceptions.InstallationError: Command "/home/tentacools/Desktop/bronchinet/bronvenv/bin/python3 -u -c "import setuptools, tokenize;file='/tmp/pip-pctnm39_-build/setup.py';f=getattr(tokenize, 'open', open)(file);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, file, 'exec'))" install --record /tmp/pip-4m65moo9-record/install-record.txt --single-version-externally-managed --compile --install-headers /home/tentacools/Desktop/bronchinet/bronvenv/include/site/python3.6/SimpleITK" failed with error code 1 in /tmp/pip-pctnm39_-build/ `

Does anyone have any ideas of what this is or can be related to? Thanks in advance!

[zivy]

Hello @LightEssembly,

Not sure about the error. Please note that the code you are using is not what is recommended for manual building and language wrapping, that process is described here.

I don't think that is the problem here, possibly @blowekamp can comment.