【发布时间】:2018-12-11 23:49:00
【问题描述】:
我希望在安装 Andreas Mueller 的MATLAB bindings for Global Probability of Boundary 时获得帮助。
我希望我的问题在我的安装中没有根深蒂固,所以我将首先描述当前的问题,下面的段落会指出一些实施尝试。
根据 Mueller 在自述文件中的说明,我尽我所能安装了 CUDA、ACML 和 GCC(目前正在使用 RHEL 7)。在成功构建/安装库libdamascene.so 后,我在/etc/ld.so.conf.d/ 中包含了一个txt 文件,其中包含libdamascene.so 的路径。它在我使用ldconfig -p | grep libdamascene.so 时出现。
当我打开 MATLAB 并尝试构建 MEX 文件(使用 GCC 6.3)时,我得到了
Error using mex:
In file included from ../damascene-python-and-matlab-bindings-master/bindings/gpb_mex.c: 3: 0:
../damascene-python-and-matlab-bindings-master/bindings/gpb.h: 10: 143: error: expected ';', ',' or ')' before '=' token
void gpb(const unsigned int* in)image, unsigned int width, unsigned int height, float* border, int*textons, float* orientations, int device_num=0);
我收集到的几个后续错误是由于编译器无法正确读取标头。
我尝试做的一件事是简单地删除 device_num = 0 的声明,并将其显式初始化放在 gpb_mex.c 函数调用中。这个结果更加模糊。
Error using mex
/tmp/mex_1295917814264136_135235/gpb_mex.o: In function 'mexFunction':
gpb_mex.c: (.text+0x161): undefined reference to gpb
collect2: error: ld returned 1 exit status.
这个错误让我觉得我的库有问题,调试起来更具挑战性。我不会把我尝试过的所有东西(按需提供)来成功构建库,但让我总结一下:
- 我运行的是 CUDA 9.0,而不是 CUDA 8.0。
- 我正在运行来自 AMD Open64 SDK 的
gpuacml(我只能找到一个)。 - 我不得不将
CMakelists.txt主文件中的gpu_architecture从sm_20更改为sm_70。 - 我单独安装了 GCC 6.3.0(和 GCC 5.3.0),因此可以构建库。
我最大的问题是:您认为这确实是一个错误构建的库的问题,还是缺少其他东西。有什么方法可以检查库libdamascene.so 是否正常工作?
请让我知道如何澄清我的情况。非常感谢!
编辑:我包含了其他数据。
这是我尝试编译 MEX 文件时的 MATLAB 输出。
mex -v GCC='/usr/bin/gcc63' G++='/usr/bin/g++63' gpb_mex.c
Verbose mode is on.
... Looking for compiler 'gcc' ...
... Executing command 'which gcc' ...Yes ('/usr/bin/gcc').
... Executing command 'gcc -print-file-name=libstdc++.so' ...Yes ('/usr/lib/gcc/x86_64-redhat-linux/4.8.5/libstdc++.so').
Found installed compiler 'gcc'.
Options file details
-------------------------------------------------------------------
Compiler location: /usr/bin/gcc63
Options file: /home/clusterbomb/.matlab/R2018b/mex_C_glnxa64.xml
CMDLINE2 : /usr/bin/gcc63 -pthread -Wl,--no-undefined -Wl,-rpath-link,/usr/local/MATLAB/R2018b/bin/glnxa64 -shared -O -Wl,--version-script,"/usr/local/MATLAB/R2018b/extern/lib/glnxa64/c_exportsmexfileversion.map" /tmp/mex_1326595352957888_135235/gpb_mex.o /tmp/mex_1326595352957888_135235/c_mexapi_version.o -L"/usr/local/MATLAB/R2018b/bin/glnxa64" -lmx -lmex -lmat -lm -lstdc++ -o gpb_mex.mexa64
CC : /usr/bin/gcc63
DEFINES : -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE
MATLABMEX : -DMATLAB_MEX_FILE
CFLAGS : -fexceptions -fPIC -fno-omit-frame-pointer -pthread
INCLUDE : -I"/usr/local/MATLAB/R2018b/extern/include" -I"/usr/local/MATLAB/R2018b/simulink/include"
COPTIMFLAGS : -O2 -fwrapv -DNDEBUG
CDEBUGFLAGS : -g
LD : /usr/bin/gcc63
LDFLAGS : -pthread -Wl,--no-undefined -Wl,-rpath-link,/usr/local/MATLAB/R2018b/bin/glnxa64
LDTYPE : -shared
FUNCTIONMAP : "/usr/local/MATLAB/R2018b/extern/lib/glnxa64/mexFunction.map"
VERSIONMAP : "/usr/local/MATLAB/R2018b/extern/lib/glnxa64/c_exportsmexfileversion.map"
LINKEXPORT : -Wl,--version-script,"/usr/local/MATLAB/R2018b/extern/lib/glnxa64/mexFunction.map"
LINKEXPORTVER : -Wl,--version-script,"/usr/local/MATLAB/R2018b/extern/lib/glnxa64/c_exportsmexfileversion.map"
LINKLIBS : -L"/usr/local/MATLAB/R2018b/bin/glnxa64" -lmx -lmex -lmat -lm -lstdc++
LDOPTIMFLAGS : -O
LDDEBUGFLAGS : -g
MWCPPLIB : "/usr/local/MATLAB/R2018b/sys/os/glnxa64/libstdc++.so.6"
OBJEXT : .o
LDEXT : .mexa64
SETENV : CC="/usr/bin/gcc63"
CXX="g++"
CFLAGS="-fexceptions -fPIC -fno-omit-frame-pointer -pthread -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE "
CXXFLAGS="-fexceptions -fPIC -fno-omit-frame-pointer -pthread -std=c++11 -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE "
COPTIMFLAGS="-O2 -fwrapv -DNDEBUG"
CXXOPTIMFLAGS="-O2 -fwrapv -DNDEBUG"
CDEBUGFLAGS="-g"
CXXDEBUGFLAGS="-g"
LD="/usr/bin/gcc63"
LDXX="g++"
LDFLAGS="-pthread -Wl,--no-undefined -Wl,-rpath-link,/usr/local/MATLAB/R2018b/bin/glnxa64 -shared -L"/usr/local/MATLAB/R2018b/bin/glnxa64" -lmx -lmex -lmat -lm -lstdc++ -Wl,--version-script,"/usr/local/MATLAB/R2018b/extern/lib/glnxa64/mexFunction.map""
LDDEBUGFLAGS="-g"
GCC : /usr/bin/gcc63
CPPLIBS : /usr/lib/gcc/x86_64-redhat-linux/4.8.5/libstdc++.so
MATLABROOT : /usr/local/MATLAB/R2018b
ARCH : glnxa64
SRC : "/home/clusterbomb/Downloads/GPUGPB/damascene-python-and-matlab-bindings-master/bindings/gpb_mex.c";"/usr/local/MATLAB/R2018b/extern/version/c_mexapi_version.c"
OBJ : /tmp/mex_1326595352957888_135235/gpb_mex.o;/tmp/mex_1326595352957888_135235/c_mexapi_version.o
OBJS : /tmp/mex_1326595352957888_135235/gpb_mex.o /tmp/mex_1326595352957888_135235/c_mexapi_version.o
SRCROOT : /home/clusterbomb/Downloads/GPUGPB/damascene-python-and-matlab-bindings-master/bindings/gpb_mex
DEF : /tmp/mex_1326595352957888_135235/gpb_mex.def
EXP : "gpb_mex.exp"
LIB : "gpb_mex.lib"
EXE : gpb_mex.mexa64
ILK : "gpb_mex.ilk"
MANIFEST : "gpb_mex.mexa64.manifest"
TEMPNAME : gpb_mex
EXEDIR :
EXENAME : gpb_mex
G++ : /usr/bin/g++63
OPTIM : -O2 -fwrapv -DNDEBUG
LINKOPTIM : -O
CMDLINE1_0 : /usr/bin/gcc63 -c -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/usr/local/MATLAB/R2018b/extern/include" -I"/usr/local/MATLAB/R2018b/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -O2 -fwrapv -DNDEBUG "/home/clusterbomb/Downloads/GPUGPB/damascene-python-and-matlab-bindings-master/bindings/gpb_mex.c" -o /tmp/mex_1326595352957888_135235/gpb_mex.o
CMDLINE1_1 : /usr/bin/gcc63 -c -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/usr/local/MATLAB/R2018b/extern/include" -I"/usr/local/MATLAB/R2018b/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -O2 -fwrapv -DNDEBUG "/usr/local/MATLAB/R2018b/extern/version/c_mexapi_version.c" -o /tmp/mex_1326595352957888_135235/c_mexapi_version.o
-------------------------------------------------------------------
Building with 'gcc'.
/usr/bin/gcc63 -c -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/usr/local/MATLAB/R2018b/extern/include" -I"/usr/local/MATLAB/R2018b/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -O2 -fwrapv -DNDEBUG "/home/clusterbomb/Downloads/GPUGPB/damascene-python-and-matlab-bindings-master/bindings/gpb_mex.c" -o /tmp/mex_1326595352957888_135235/gpb_mex.o
/usr/bin/gcc63 -c -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/usr/local/MATLAB/R2018b/extern/include" -I"/usr/local/MATLAB/R2018b/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -O2 -fwrapv -DNDEBUG "/usr/local/MATLAB/R2018b/extern/version/c_mexapi_version.c" -o /tmp/mex_1326595352957888_135235/c_mexapi_version.o
/usr/bin/gcc63 -pthread -Wl,--no-undefined -Wl,-rpath-link,/usr/local/MATLAB/R2018b/bin/glnxa64 -shared -O -Wl,--version-script,"/usr/local/MATLAB/R2018b/extern/lib/glnxa64/c_exportsmexfileversion.map" /tmp/mex_1326595352957888_135235/gpb_mex.o /tmp/mex_1326595352957888_135235/c_mexapi_version.o -L"/usr/local/MATLAB/R2018b/bin/glnxa64" -lmx -lmex -lmat -lm -lstdc++ -o gpb_mex.mexa64
Error using mex
/tmp/mex_1326595352957888_135235/gpb_mex.o: In function `mexFunction':
gpb_mex.c:(.text+0x161): undefined reference to `gpb'
collect2: error: ld returned 1 exit status
这是头文件gpb.h(编辑删除device_num=0):
void gpb(const unsigned int* in_image,unsigned int width,unsigned int height, float* border, int* textons, float* orientations, int device_num);
这是 gpb_mex.c 文件,最后一行中声明的 device_num 被更改:
#include <mex.h>
#include "gpb.h"
void mexFunction(int nOut, mxArray *pOut[],
int nIn, const mxArray *pIn[])
{
mwSize width, height;
float* borders;
float* orientations;
int* textons;
unsigned int *in_image;
mwSize dims[3];
mwSize orientation_dims[3];
if((nIn != 1) || (nOut != 3))
mexErrMsgTxt("Usage: border,textons,orientations = gpb(image)");
if (!mxIsClass(pIn[0],"uint8") || mxGetNumberOfDimensions(pIn[0]) != 3) {
mexErrMsgTxt("Usage: th argument must be a unsigned int matrix");
}
const mwSize *indims= mxGetDimensions(pIn[0]);
if (indims[0]!=4)
mexErrMsgTxt("Image needs to be of shape 4 x widht x height");
width = indims[2];
height = indims[1];
mexPrintf("width %d, height %d\n",width,height);
mexPrintf("Element-size: %d, sizeof(int): %d, sizeof(char) %d\n",mxGetElementSize(pIn[0]),sizeof(int),sizeof(unsigned char));
dims[0]=width; dims[1]=height; //for rgb0
mexPrintf("width: %d height: %d\n",width, height);
pOut[0]=mxCreateNumericMatrix(height,width,mxSINGLE_CLASS,mxREAL);
pOut[1]=mxCreateNumericMatrix(height,width,mxINT32_CLASS,mxREAL);
orientation_dims[0]=width; orientation_dims[1]=height; orientation_dims[2]=8;
pOut[2]=mxCreateNumericArray(3,orientation_dims,mxSINGLE_CLASS,mxREAL);
borders=(float*) mxGetPr(pOut[0]);
textons=(int*) mxGetPr(pOut[1]);
orientations=(float*) mxGetPr(pOut[2]);
in_image = (unsigned int*) mxGetData(pIn[0]);
gpb(in_image,height,width,borders,textons,orientations, 0);
}
很高兴根据需要提供更多源代码,但其余部分将直接从 amueller 的存储库中提取(上面的链接)。
编辑 2:
使用-L导致权限错误,我在linux终端通过sudo chmod 755 libdamascene.so解决。
所以好消息是,matlab 能够找到 libdamascene,这可以从它在权限被拒绝后继续前进中得到证明。不幸的是,编译器仍在苦苦挣扎。
mex -v GCC='/usr/bin/gcc63' gpb_mex.c -L</home/clusterbomb/Downloads/GPUGPB/damascene-python-and-matlab-bindings-master/build/libdamascene.so>
Verbose mode is on.
... Looking for compiler 'gcc' ...
... Executing command 'which gcc' ...Yes ('/usr/bin/gcc').
... Executing command 'gcc -print-file-name=libstdc++.so' ...Yes ('/usr/lib/gcc/x86_64-redhat-linux/4.8.5/libstdc++.so').
Found installed compiler 'gcc'.
Options file details
-------------------------------------------------------------------
Compiler location: /usr/bin/gcc63
Options file: /home/clusterbomb/.matlab/R2018b/mex_C_glnxa64.xml
CMDLINE2 : /usr/bin/gcc63 -pthread -Wl,--no-undefined -Wl,-rpath-link,/usr/local/MATLAB/R2018b/bin/glnxa64 -shared -O -Wl,--version-script,"/usr/local/MATLAB/R2018b/extern/lib/glnxa64/c_exportsmexfileversion.map" /tmp/mex_1363958469865432_171081/gpb_mex.o /tmp/mex_1363958469865432_171081/c_mexapi_version.o -L</home/clusterbomb/Downloads/GPUGPB/damascene-python-and-matlab-bindings-master/build/libdamascene.so> -L"/usr/local/MATLAB/R2018b/bin/glnxa64" -lmx -lmex -lmat -lm -lstdc++ -o gpb_mex.mexa64
CC : /usr/bin/gcc63
DEFINES : -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE
MATLABMEX : -DMATLAB_MEX_FILE
CFLAGS : -fexceptions -fPIC -fno-omit-frame-pointer -pthread
INCLUDE : -I"/usr/local/MATLAB/R2018b/extern/include" -I"/usr/local/MATLAB/R2018b/simulink/include"
COPTIMFLAGS : -O2 -fwrapv -DNDEBUG
CDEBUGFLAGS : -g
LD : /usr/bin/gcc63
LDFLAGS : -pthread -Wl,--no-undefined -Wl,-rpath-link,/usr/local/MATLAB/R2018b/bin/glnxa64
LDTYPE : -shared
FUNCTIONMAP : "/usr/local/MATLAB/R2018b/extern/lib/glnxa64/mexFunction.map"
VERSIONMAP : "/usr/local/MATLAB/R2018b/extern/lib/glnxa64/c_exportsmexfileversion.map"
LINKEXPORT : -Wl,--version-script,"/usr/local/MATLAB/R2018b/extern/lib/glnxa64/mexFunction.map"
LINKEXPORTVER : -Wl,--version-script,"/usr/local/MATLAB/R2018b/extern/lib/glnxa64/c_exportsmexfileversion.map"
LINKLIBS : -L</home/clusterbomb/Downloads/GPUGPB/damascene-python-and-matlab-bindings-master/build/libdamascene.so> -L"/usr/local/MATLAB/R2018b/bin/glnxa64" -lmx -lmex -lmat -lm -lstdc++
LDOPTIMFLAGS : -O
LDDEBUGFLAGS : -g
MWCPPLIB : "/usr/local/MATLAB/R2018b/sys/os/glnxa64/libstdc++.so.6"
OBJEXT : .o
LDEXT : .mexa64
SETENV : CC="/usr/bin/gcc63"
CXX="g++"
CFLAGS="-fexceptions -fPIC -fno-omit-frame-pointer -pthread -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE "
CXXFLAGS="-fexceptions -fPIC -fno-omit-frame-pointer -pthread -std=c++11 -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE "
COPTIMFLAGS="-O2 -fwrapv -DNDEBUG"
CXXOPTIMFLAGS="-O2 -fwrapv -DNDEBUG"
CDEBUGFLAGS="-g"
CXXDEBUGFLAGS="-g"
LD="/usr/bin/gcc63"
LDXX="g++"
LDFLAGS="-pthread -Wl,--no-undefined -Wl,-rpath-link,/usr/local/MATLAB/R2018b/bin/glnxa64 -shared -L</home/clusterbomb/Downloads/GPUGPB/damascene-python-and-matlab-bindings-master/build/libdamascene.so> -L"/usr/local/MATLAB/R2018b/bin/glnxa64" -lmx -lmex -lmat -lm -lstdc++ -Wl,--version-script,"/usr/local/MATLAB/R2018b/extern/lib/glnxa64/mexFunction.map""
LDDEBUGFLAGS="-g"
GCC : /usr/bin/gcc63
CPPLIBS : /usr/lib/gcc/x86_64-redhat-linux/4.8.5/libstdc++.so
MATLABROOT : /usr/local/MATLAB/R2018b
ARCH : glnxa64
SRC : "/home/clusterbomb/Downloads/GPUGPB/damascene-python-and-matlab-bindings-master/bindings/gpb_mex.c";"/usr/local/MATLAB/R2018b/extern/version/c_mexapi_version.c"
OBJ : /tmp/mex_1363958469865432_171081/gpb_mex.o;/tmp/mex_1363958469865432_171081/c_mexapi_version.o
OBJS : /tmp/mex_1363958469865432_171081/gpb_mex.o /tmp/mex_1363958469865432_171081/c_mexapi_version.o
SRCROOT : /home/clusterbomb/Downloads/GPUGPB/damascene-python-and-matlab-bindings-master/bindings/gpb_mex
DEF : /tmp/mex_1363958469865432_171081/gpb_mex.def
EXP : "gpb_mex.exp"
LIB : "gpb_mex.lib"
EXE : gpb_mex.mexa64
ILK : "gpb_mex.ilk"
MANIFEST : "gpb_mex.mexa64.manifest"
TEMPNAME : gpb_mex
EXEDIR :
EXENAME : gpb_mex
OPTIM : -O2 -fwrapv -DNDEBUG
LINKOPTIM : -O
CMDLINE1_0 : /usr/bin/gcc63 -c -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/usr/local/MATLAB/R2018b/extern/include" -I"/usr/local/MATLAB/R2018b/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -O2 -fwrapv -DNDEBUG "/home/clusterbomb/Downloads/GPUGPB/damascene-python-and-matlab-bindings-master/bindings/gpb_mex.c" -o /tmp/mex_1363958469865432_171081/gpb_mex.o
CMDLINE1_1 : /usr/bin/gcc63 -c -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/usr/local/MATLAB/R2018b/extern/include" -I"/usr/local/MATLAB/R2018b/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -O2 -fwrapv -DNDEBUG "/usr/local/MATLAB/R2018b/extern/version/c_mexapi_version.c" -o /tmp/mex_1363958469865432_171081/c_mexapi_version.o
-------------------------------------------------------------------
Building with 'gcc'.
/usr/bin/gcc63 -c -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/usr/local/MATLAB/R2018b/extern/include" -I"/usr/local/MATLAB/R2018b/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -O2 -fwrapv -DNDEBUG "/home/clusterbomb/Downloads/GPUGPB/damascene-python-and-matlab-bindings-master/bindings/gpb_mex.c" -o /tmp/mex_1363958469865432_171081/gpb_mex.o
/usr/bin/gcc63 -c -DMATLAB_DEFAULT_RELEASE=R2017b -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/usr/local/MATLAB/R2018b/extern/include" -I"/usr/local/MATLAB/R2018b/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -O2 -fwrapv -DNDEBUG "/usr/local/MATLAB/R2018b/extern/version/c_mexapi_version.c" -o /tmp/mex_1363958469865432_171081/c_mexapi_version.o
/usr/bin/gcc63 -pthread -Wl,--no-undefined -Wl,-rpath-link,/usr/local/MATLAB/R2018b/bin/glnxa64 -shared -O -Wl,--version-script,"/usr/local/MATLAB/R2018b/extern/lib/glnxa64/c_exportsmexfileversion.map" /tmp/mex_1363958469865432_171081/gpb_mex.o /tmp/mex_1363958469865432_171081/c_mexapi_version.o -L</home/clusterbomb/Downloads/GPUGPB/damascene-python-and-matlab-bindings-master/build/libdamascene.so> -L"/usr/local/MATLAB/R2018b/bin/glnxa64" -lmx -lmex -lmat -lm -lstdc++ -o gpb_mex.mexa64
/tmp/mex_1363958922594243_171081: line 2: -L/usr/local/MATLAB/R2018b/bin/glnxa64: No such file or directory
Error using mex
The command '/usr/bin/gcc63' exited with a return value '1'
我已经两次和三次检查目录 /usr/local/MATLAB/R2018b/bin/glnxa64 是否存在(确实存在)。我也试过restoredefaultpath 和rehash toolboxcache 无济于事。当我使用 gcc 5.3.0 或本机 RHEL 7 gcc 时没有变化。感谢您迄今为止的帮助!
【问题讨论】:
-
这些都是编译器错误,它们与库完全无关。这是源代码的问题。您可能正在使用 C 编译器编译 C++ 代码,或者使用较旧的 C++ 编译器编译 C++11 代码。如果没有看到源代码和编译命令,很难分辨出哪个。
-
你带来了希望!我已编辑问题以包含更多信息。如果你有时间,请再看看!如果我能提供更多,请告诉我。
-
你应该使用提供的makefile来编译mex。
-
@rahnema1 是对的,Makefile 添加了一堆我认为是 CUDA 代码的目标文件,OP 的编译尝试中不包含这些文件。但它也将目标架构设置为 32 位,而最新版本的 MATLAB 都不是 32 位的。它遗漏了 MEX 文件与较新版本的 MATLAB 一起使用所需的一些编译器标志和声明。这可能不像我最初想象的那么容易解决......