kyuepublic / ptychopy Goto Github PK

Hello!
I'm having this problem with the installation process following your README file.

My device is python 3.6, CUDA 10.2, gcc and g++ are both version 4.8.5, and after running . /install.sh, I got an error halfway through the
installation:

error: Command "g++ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -fPIC -I/home/pxy/miniconda3/envs/ptychopy/lib/ python3.6/site-packages/numpy/core/include -I['/home/pxy/miniconda3/envs/ptychopy/lib/python3.6/site-packages/numpy/core/include'] - I/usr/local/cuda-10.2/include -I/usr/local/cuda-10.2/samples/common/inc -I/home/pxy/miniconda3/envs/ptychopy/include -I./src -I/home/ pxy/miniconda3/envs/ptychopy/include/python3.6m -c . /src/FileManager.cpp -o build/temp.linux-x86_64-3.6/src/FileManager.o -DEPIE_HDF5 -fpic -DHAVE_HDF5" failed with exit status 1

I don't know what the problem is, so I'm asking for your help!Thanks!

I cannot compile ptychopy because the extra compiler options are not being passed correctly?

(ptychopy) dching@RADIO:~/Documents/ptychopy$ python setup.py build -v
running build
running build_ext
building 'ptychopy' extension
Warning: Can't read registry to find the necessary compiler setting
Make sure that Python modules winreg, win32api or win32con are installed.
C compiler: g++ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -pipe -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -pipe -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem /home/dching/miniconda3/envs/ptychopy/include -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem /home/dching/miniconda3/envs/ptychopy/include -fPIC

compile options: '-I/home/dching/miniconda3/envs/ptychopy/lib/python3.7/site-packages/numpy/core/include -I['/home/dching/miniconda3/envs/ptychopy/lib/python3.7/site-packages/numpy/core/include'] -I/usr/local/cuda/include -I/usr/local/cuda/samples/common/inc -I/home/dching/miniconda3/envs/ptychopy/include -I/home/dching/miniconda3/envs/ptychopy/include/python3.7m -c'
extra options: 'nvcc gcc g++'
nvcc: ./src/ProbeKernels.cu
nvcc: ./src/DiffractionsKernels.cu
nvcc: ./src/ScanMeshKernels.cu
nvcc: ./src/CudaSmartPtr.cpp
nvcc fatal   : Unknown option '-fpic'
nvcc: ./src/IPtychoScanMesh.cpp
nvcc fatal   : Unknown option '-fpic'
nvcc: ./src/ThreadPool.cpp
nvcc fatal   : Unknown option '-fpic'
nvcc: ./src/Sample.cpp
nvcc fatal   : Unknown option '-fpic'
nvcc: ./src/Diffractions.cpp
nvcc fatal   : Unknown option '-fpic'
nvcc: ./src/utilities.cpp
nvcc fatal   : Unknown option '-fpic'

nvcc: NVIDIA (R) Cuda compiler driver
Copyright (c) 2005-2020 NVIDIA Corporation
Built on Mon_Oct_12_20:09:46_PDT_2020
Cuda compilation tools, release 11.1, V11.1.105
Build cuda_11.1.TC455_06.29190527_0

setuptools is version 49.6.0

After running this command to build your program: python setup.py build -v
I get the following error message. Seems that your program doesn't support cuda 11.3 ?

running build
running build_ext
building 'ptychopy' extension
Warning: Can't read registry to find the necessary compiler setting
Make sure that Python modules winreg, win32api or win32con are installed.
C compiler: g++ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -fPIC

compile options: '-I/home/xf9/miniconda3/envs/epie/lib/python3.6/site-packages/numpy/core/include -I['/home/xf9/miniconda3/envs/epie/lib/python3.6/site-packages/numpy/core/include'] -I/usr/local/cuda-11.3/include -I/usr/local/cuda-11.3/samples/common/inc -I/home/xf9/miniconda3/envs/epie/include -I./src -I/home/xf9/miniconda3/envs/epie/include/python3.6m -c'
extra options: 'nvcc gcc g++'
g++: ./src/CartesianScanMesh.cpp
g++: ./src/CudaSmartPtr.cpp
nvcc: ./src/utilitiesKernels.cu
nvcc: ./src/ScanMeshKernels.cu
nvcc: ./src/ProbeKernels.cu
g++: ./src/Cuda2DArray.cpp
nvcc: ./src/SampleKernels.cu
nvcc: ./src/DiffractionsKernels.cu
nvcc fatal : Unsupported gpu architecture 'compute_113'
nvcc fatal : Unsupported gpu architecture 'compute_113'
nvcc fatal : Unsupported gpu architecture 'compute_113'
nvcc fatal : Unsupported gpu architecture 'compute_113'
g++: ./src/IPtychoScanMesh.cpp
nvcc fatal : Unsupported gpu architecture 'compute_113'
g++: ./src/DiffractionLoader.cpp
g++: ./src/ThreadPool.cpp
g++: ./src/ListScanMesh.cpp
g++: ./src/Sample.cpp

I run on the code on CUDA 11.2 with GCC 9.4 on Ubuntu OS.
The program can make the right reconstruction result. In src/examples/testEPIE.cpp, after write the result to disk "phaser->writeResultsToDisk; ", the program delete the pointer of class IPhaser "delete phaser; ", then the program got the "Segmentation fault".
I try to figure its location, but have no idea. Maybe the CUDA version make the problem. Would you please help me to figure it out?