Yanzi-S
commented
1 week ago I also have this problem, have you solved it? Thanks!
Open jmlipman opened 2 months ago
Yanzi-S
commented
1 week ago I also have this problem, have you solved it? Thanks!
jmlipman
commented
1 week ago No :(
Hi,
I tried to pip install TopologyLayer, as well as doing "python setup.py install --record files.txt". In both cases, I get an extremely long error. These are the very last lines:
~~ /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/arg.h:7:15: note: in definition of macro ‘TORCH_ARG’ 7~~ /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/arg.h:7:15: note: in definition of macro ‘TORCH_ARG’ 7~~ /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/arg.h:11:15: note: in definition of macro ‘TORCH_ARG’ 11~~ /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/arg.h:11:15: note: in definition of macro ‘TORCH_ARG’ 11~~ /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/options/conv.h:64:18: note: candidate expects 1 argument, 0 provided In file included from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules.h:20, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn.h:7, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/all.h:16, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/extension.h:5, from /zhome/72/3/199765/delete/TopologyLayer/topologylayer/functional/persistence/pybind.cpp:1: /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h: In instantiation of ‘void torch::nn::ConvNdImpl<D, Derived>::reset_parameters() [with long unsigned int D = 1; Derived = torch::nn::ConvTranspose1dImpl]’: /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h:101:5: required from ‘void torch::nn::ConvNdImpl<D, Derived>::reset() [with long unsigned int D = 1; Derived = torch::nn::ConvTranspose1dImpl]’ /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h:33:8: required from here /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h:105:27: error: cannot convert ‘const torch::enumtype::kFanIn’ to ‘int’ 105~~~~~~^~~~~~~~~~~~~^~~~~~ In file included from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules.h:20, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn.h:7, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/all.h:16, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/extension.h:5, from /zhome/72/3/199765/delete/TopologyLayer/topologylayer/functional/persistence/pybind.cpp:1: /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h: In instantiation of ‘void torch::nn::ConvNdImpl<D, Derived>::reset_parameters() [with long unsigned int D = 3; Derived = torch::nn::Conv3dImpl]’: /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h:101:5: required from ‘void torch::nn::ConvNdImpl<D, Derived>::reset() [with long unsigned int D = 3; Derived = torch::nn::Conv3dImpl]’ /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h:33:8: required from here /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h:105:27: error: cannot convert ‘const torch::enumtype::kFanIn’ to ‘int’ 105~~~~~~^~~~~~~~~~~~~^~~~~~ In file included from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules.h:20, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn.h:7, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/all.h:16, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/extension.h:5, from /zhome/72/3/199765/delete/TopologyLayer/topologylayer/functional/persistence/pybind.cpp:1: /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h: In instantiation of ‘void torch::nn::ConvNdImpl<D, Derived>::reset_parameters() [with long unsigned int D = 2; Derived = torch::nn::Conv2dImpl]’: /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h:101:5: required from ‘void torch::nn::ConvNdImpl<D, Derived>::reset() [with long unsigned int D = 2; Derived = torch::nn::Conv2dImpl]’ /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h:33:8: required from here /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h:105:27: error: cannot convert ‘const torch::enumtype::kFanIn’ to ‘int’ 105~~~~~~^~~~~~~~~~~~~^~~~~~ In file included from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules.h:20, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn.h:7, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/all.h:16, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/extension.h:5, from /zhome/72/3/199765/delete/TopologyLayer/topologylayer/functional/persistence/pybind.cpp:1: /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h: In instantiation of ‘void torch::nn::ConvNdImpl<D, Derived>::reset_parameters() [with long unsigned int D = 1; Derived = torch::nn::Conv1dImpl]’: /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h:101:5: required from ‘void torch::nn::ConvNdImpl<D, Derived>::reset() [with long unsigned int D = 1; Derived = torch::nn::Conv1dImpl]’ /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h:33:8: required from here /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/modules/conv.h:105:27: error: cannot convert ‘const torch::enumtype::kFanIn’ to ‘int’ 105~~~~~~^~~~~~~~~~~In file included from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn.h:5, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/all.h:16, from /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/extension.h:5, from /zhome/72/3/199765/delete/TopologyLayer/topologylayer/functional/persistence/pybind.cpp:1: /xxxx/envs/bricks/lib/python3.10/site-packages/torch/include/torch/csrc/api/include/torch/nn/init.h:99:17: note: initializing argument 3 of ‘at::Tensor torch::nn::init::kaiminguniform(at::Tensor, double, int, int)’ 99 | FanModeType mode = torch::kFanIn, |
~~^~~~~~ ninja: build stopped: subcommand failed. Traceback (most recent call last): File "/xxxx/envs/bricks/lib/python3.10/site-packages/torch/utils/cpp_extension.py", line 2107, in _run_ninja_build subprocess.run( File "/appl9/python/3.10.12/lib/python3.10/subprocess.py", line 526, in run raise CalledProcessError(retcode, process.args, subprocess.CalledProcessError: Command '['ninja', '-v']' returned non-zero exit status 1.The above exception was the direct cause of the following exception:
Traceback (most recent call last): File "/zhome/72/3/199765/delete/TopologyLayer/setup.py", line 11, in
setup(name='topologylayer',
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/init.py", line 107, in setup
return distutils.core.setup(**attrs)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/core.py", line 185, in setup
return run_commands(dist)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/core.py", line 201, in run_commands
dist.run_commands()
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/dist.py", line 969, in run_commands
self.run_command(cmd)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/dist.py", line 1234, in run_command
super().run_command(command)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/command/install.py", line 80, in run
self.do_egg_install()
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/command/install.py", line 129, in do_egg_install
self.run_command('bdist_egg')
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/cmd.py", line 318, in run_command
self.distribution.run_command(command)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/dist.py", line 1234, in run_command
super().run_command(command)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/command/bdist_egg.py", line 164, in run
cmd = self.call_command('install_lib', warn_dir=0)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/command/bdist_egg.py", line 150, in call_command
self.run_command(cmdname)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/cmd.py", line 318, in run_command
self.distribution.run_command(command)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/dist.py", line 1234, in run_command
super().run_command(command)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/command/install_lib.py", line 11, in run
self.build()
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/command/install_lib.py", line 111, in build
self.run_command('build_ext')
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/cmd.py", line 318, in run_command
self.distribution.run_command(command)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/dist.py", line 1234, in run_command
super().run_command(command)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/command/build_ext.py", line 84, in run
_build_ext.run(self)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/command/build_ext.py", line 345, in run
self.build_extensions()
File "/xxxx/envs/bricks/lib/python3.10/site-packages/torch/utils/cpp_extension.py", line 870, in build_extensions
build_ext.build_extensions(self)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/command/build_ext.py", line 467, in build_extensions
self._build_extensions_serial()
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/command/build_ext.py", line 493, in _build_extensions_serial
self.build_extension(ext)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/command/build_ext.py", line 246, in build_extension
_build_ext.build_extension(self, ext)
File "/xxxx/envs/bricks/lib/python3.10/site-packages/Cython/Distutils/build_ext.py", line 135, in build_extension
super(build_ext, self).build_extension(ext)
File "/appl9/python/3.10.12/lib/python3.10/site-packages/setuptools/_distutils/command/build_ext.py", line 548, in build_extension
objects = self.compiler.compile(
File "/xxxx/envs/bricks/lib/python3.10/site-packages/torch/utils/cpp_extension.py", line 683, in unix_wrap_ninja_compile
_write_ninja_file_and_compile_objects(
File "/xxxx/envs/bricks/lib/python3.10/site-packages/torch/utils/cpp_extension.py", line 1783, in _write_ninja_file_and_compile_objects
_run_ninja_build(
File "/xxxx/envs/bricks/lib/python3.10/site-packages/torch/utils/cpp_extension.py", line 2123, in _run_ninja_build
raise RuntimeError(message) from e
RuntimeError: Error compiling objects for extension
`
Python version: 3.10.12 OS: AlmaLinux 9.4 Other packages: asttokens==2.4.1 connected-components-3d==3.18.0 contourpy==1.2.1 cycler==0.12.1 Cython==3.0.11 decorator==5.1.1 distlib==0.3.7 exceptiongroup==1.2.2 executing==2.0.1 filelock==3.12.2 fonttools==4.53.1 fsspec==2024.6.1 gudhi==3.10.1 h5py==3.11.0 imageio==2.35.1 ipython==8.26.0 jedi==0.19.1 jinja2==3.1.4 joblib==1.4.2 kiwisolver==1.4.5 lazy-loader==0.4 MarkupSafe==2.1.5 matplotlib==3.9.2 matplotlib-inline==0.1.7 MedPy==0.5.2 monai==1.3.2 mpmath==1.3.0 networkx==3.3 nibabel==5.2.1 numpy==1.26.4 nvidia-cublas-cu12==12.1.3.1 nvidia-cuda-cupti-cu12==12.1.105 nvidia-cuda-nvrtc-cu12==12.1.105 nvidia-cuda-runtime-cu12==12.1.105 nvidia-cudnn-cu12==8.9.2.26 nvidia-cufft-cu12==11.0.2.54 nvidia-curand-cu12==10.3.2.106 nvidia-cusolver-cu12==11.4.5.107 nvidia-cusparse-cu12==12.1.0.106 nvidia-nccl-cu12==2.20.5 nvidia-nvjitlink-cu12==12.6.20 nvidia-nvtx-cu12==12.1.105 opencv-python==4.10.0.84 packaging==24.1 pandas==2.2.2 parso==0.8.4 pexpect==4.9.0 pillow==10.4.0 platformdirs==3.9.1 POT==0.9.4 prompt-toolkit==3.0.47 ptyprocess==0.7.0 pure-eval==0.2.3 pygments==2.18.0 pyparsing==3.1.4 python-dateutil==2.9.0.post0 pytz==2024.1 PyYAML==6.0.2 scikit-image==0.24.0 scikit-learn==1.5.1 scipy==1.14.1 SimpleITK==2.3.1 six==1.16.0 stack-data==0.6.3 sympy==1.13.2 threadpoolctl==3.5.0 tifffile==2024.8.24 torch==2.3.1 torchaudio==2.3.1 torchvision==0.18.1 traitlets==5.14.3 triton==2.3.1 typing-extensions==4.12.2 tzdata==2024.1 UNKNOWN==0.0.0 virtualenv==20.24.1 wcwidth==0.2.13