Unable to build on Ubuntu16.04 with python3.5

[YvetteLaw]

PCL1.8
Ubuntu16.04
Python 3.5
Cython 0.25.2

when I try to build Python-pcl，this error appears, even when I tend to PCL1.7.

$ :~/py3.5_tf1.2_virtu/python_pcl/python-pcl-master$ make
python setup.py build_ext --inplace
running build_ext
skipping 'pcl/_pcl_180.cpp' Cython extension (up-to-date)
building 'pcl._pcl' extension
x86_64-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -g -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DEIGEN_YES_I_KNOW_SPARSE_MODULE_IS_NOT_STABLE_YET=1 -I/usr/local/lib/python2.7/dist-packages/numpy/core/include -I/usr/local/include/pcl-1.8 -I/usr/local/include -I/usr/local/include/pcl-1.8 -I/usr/include/ni -I/usr/include/eigen3 -I/usr/include/ni -I/usr/include/python2.7 -c pcl/_pcl_180.cpp -o build/temp.linux-x86_64-2.7/pcl/_pcl_180.o
cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++
In file included from /usr/local/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1781:0,
from /usr/local/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /usr/local/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
from pcl/_pcl_180.cpp:526:
/usr/local/lib/python2.7/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by "
^
In file included from pcl/_pcl_180.cpp:634:0:
/usr/local/include/pcl-1.8/pcl/keypoints/uniform_sampling.h:44:2: warning: #warning UniformSampling is not a Keypoint anymore, use <pcl/filters/uniform_sampling.h> instead. [-Wcpp]
#warning UniformSampling is not a Keypoint anymore, use <pcl/filters/uniform_sa
^
pcl/_pcl_180.cpp: In function ‘PyObject* __pyx_pf_3pcl_4_pcl_18MovingLeastSquares_8set_polynomial_fit(__pyx_obj_3pcl_4_pcl_MovingLeastSquares*, bool)’:
pcl/_pcl_180.cpp:29142:49: warning: ‘void pcl::MovingLeastSquares<PointInT, PointOutT>::setPolynomialFit(bool) [with PointInT = pcl::PointXYZ; PointOutT = pcl::PointXYZ]’ is deprecated: [pcl::surface::MovingLeastSquares::setPolynomialFit] setPolynomialFit is deprecated. Please use setPolynomialOrder instead. [-Wdeprecated-declarations]
__pyx_v_self->me->setPolynomialFit(__pyx_v_fit);
^
In file included from pcl/_pcl_180.cpp:554:0:
/usr/local/include/pcl-1.8/pcl/surface/mls.h:356:7: note: declared here
setPolynomialFit (bool polynomial_fit)
^
pcl/_pcl_180.cpp: In function ‘PyObject* __pyx_pf_3pcl_4_pcl_30MovingLeastSquares_PointXYZRGB_8set_polynomial_fit(__pyx_obj_3pcl_4_pcl_MovingLeastSquares_PointXYZRGB*, int)’:
pcl/_pcl_180.cpp:29625:49: warning: ‘void pcl::MovingLeastSquares<PointInT, PointOutT>::setPolynomialFit(bool) [with PointInT = pcl::PointXYZRGB; PointOutT = pcl::PointXYZRGB]’ is deprecated: [pcl::surface::MovingLeastSquares::setPolynomialFit] setPolynomialFit is deprecated. Please use setPolynomialOrder instead. [-Wdeprecated-declarations]
__pyx_v_self->me->setPolynomialFit(__pyx_v_fit);
^
In file included from pcl/_pcl_180.cpp:554:0:
/usr/local/include/pcl-1.8/pcl/surface/mls.h:356:7: note: declared here
setPolynomialFit (bool polynomial_fit)
^
pcl/_pcl_180.cpp: In function ‘PyObject* __pyx_pf_3pcl_4_pcl_31MovingLeastSquares_PointXYZRGBA_8set_polynomial_fit(__pyx_obj_3pcl_4_pcl_MovingLeastSquares_PointXYZRGBA*, int)’:
pcl/_pcl_180.cpp:29991:49: warning: ‘void pcl::MovingLeastSquares<PointInT, PointOutT>::setPolynomialFit(bool) [with PointInT = pcl::PointXYZRGBA; PointOutT = pcl::PointXYZRGBA]’ is deprecated: [pcl::surface::MovingLeastSquares::setPolynomialFit] setPolynomialFit is deprecated. Please use setPolynomialOrder instead. [-Wdeprecated-declarations]
__pyx_v_self->me->setPolynomialFit(__pyx_v_fit);
^
In file included from pcl/_pcl_180.cpp:554:0:
/usr/local/include/pcl-1.8/pcl/surface/mls.h:356:7: note: declared here
setPolynomialFit (bool polynomial_fit)
^
pcl/_pcl_180.cpp: In function ‘int pyx_pf_3pcl_4_pcl_18ConditionalRemoval___cinit(__pyx_obj_3pcl_4_pcl_ConditionalRemoval*, __pyx_obj_3pcl_4_pcl_ConditionAnd*)’:
pcl/_pcl_180.cpp:46441:145: error: no matching function for call to ‘pcl::ConditionalRemovalpcl::PointXYZ::ConditionalRemoval(__pyx_t_3pcl_11pcl_filters_ConditionBasePtr_t, NULL)’
val_t(((__pyx_t_3pcl_11pcl_filters_ConditionBasePtr_t)__pyx_v_cond->me), NULL);
^
In file included from pcl/_pcl_180.cpp:531:0:
/usr/local/include/pcl-1.8/pcl/filters/conditional_removal.h:618:7: note: candidate: pcl::ConditionalRemoval::ConditionalRemoval(int) [with PointT = pcl::PointXYZ]
ConditionalRemoval (int extract_removed_indices = false) :
^
/usr/local/include/pcl-1.8/pcl/filters/conditional_removal.h:618:7: note: candidate expects 1 argument, 2 provided
/usr/local/include/pcl-1.8/pcl/filters/conditional_removal.h:594:9: note: candidate: pcl::ConditionalRemovalpcl::PointXYZ::ConditionalRemoval(const pcl::ConditionalRemovalpcl::PointXYZ&)
class ConditionalRemoval : public Filter
^
/usr/local/include/pcl-1.8/pcl/filters/conditional_removal.h:594:9: note: candidate expects 1 argument, 2 provided
pcl/_pcl_180.cpp: At global scope:
pcl/_pcl_180.cpp:49917:12: warning: ‘int pyx_pw_3pcl_4_pcl_21RandomSampleConsensus_1__cinit(PyObject*, PyObject*, PyObject*)’ defined but not used [-Wunused-function]
static int pyx_pw_3pcl_4_pcl_21RandomSampleConsensus_1__cinit(PyObject __p
^
pcl/_pcl_180.cpp:50007:12: warning: ‘int pyx_pw_3pcl_4_pcl_21RandomSampleConsensus_3__cinit(PyObject, PyObject*, PyObject*)’ defined but not used [-Wunused-function]
static int pyx_pw_3pcl_4_pcl_21RandomSampleConsensus_3__cinit(PyObject *__p
^
error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
Makefile:5: recipe for target 'pcl/_pcl.so' failed
make: *** [pcl/_pcl.so] Error 1

[YvetteLaw]

Is this duplicate? I've check my PCL1.8 and make sure that it's installed successfully. But this error still exists.

[leaveitout]

I was receiving this error because I had compiled PCL from master, where the ConditionalRemoval constructor has been removed (where it was previously just marked deprecated), causing the same error as above. I fixed it by cloning PCL from the 1.8.1 tag and rebuilding it.

[tryssss]

I got the same problem like you, and I try the method introduced by @leaveitout. I fixed it finally!

[ljc19800331]

I got the same error also. Would it possible if you @leaveitout @tryssss show me solution step by step? I have the confusions like:

1."compile PCL from master" -- I don't know the exact meaning.
2."cloning PCL from 1.8.1 tag" -- Does it mean that to clone the pcl 1.8.1 from github and rebuild it? What would be the different with the previous process?

Thank you very much. I really need this help.

My problem is shown in the following (I am not sure whether these are the same problems):

running install
running bdist_egg
running egg_info
writing python_pcl.egg-info/PKG-INFO
writing dependency_links to python_pcl.egg-info/dependency_links.txt
writing requirements to python_pcl.egg-info/requires.txt
writing top-level names to python_pcl.egg-info/top_level.txt
reading manifest file 'python_pcl.egg-info/SOURCES.txt'
writing manifest file 'python_pcl.egg-info/SOURCES.txt'
installing library code to build/bdist.linux-x86_64/egg
running install_lib
running build_py
running build_ext
skipping 'pcl/_pcl_180.cpp' Cython extension (up-to-date)
building 'pcl._pcl' extension
gcc -pthread -B /home/maguangshen/anaconda3/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -DEIGEN_YES_I_KNOW_SPARSE_MODULE_IS_NOT_STABLE_YET=1 -I/home/maguangshen/anaconda3/lib/python3.6/site-packages/numpy/core/include -I/usr/include/pcl-1.8 -I/usr/include/eigen3 -I/usr/include/ni -I/usr/include/vtk-5.8 -I/usr/local/include/vtk-8.0 -I/usr/local/Cellar/vtk/8.0.1/include -I/home/maguangshen/anaconda3/include/python3.6m -c pcl/_pcl_180.cpp -o build/temp.linux-x86_64-3.6/pcl/_pcl_180.o
cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++
In file included from /home/maguangshen/anaconda3/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1809:0,
from /home/maguangshen/anaconda3/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /home/maguangshen/anaconda3/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4,
from pcl/_pcl_180.cpp:576:
/home/maguangshen/anaconda3/lib/python3.6/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by "
^
In file included from pcl/_pcl_180.cpp:683:0:
/usr/include/pcl-1.8/pcl/keypoints/uniform_sampling.h:44:2: warning: #warning UniformSampling is not a Keypoint anymore, use <pcl/filters/uniform_sampling.h> instead. [-Wcpp]
#warning UniformSampling is not a Keypoint anymore, use <pcl/filters/uniform_sa
^
pcl/_pcl_180.cpp: In function ‘int pyx_pf_3pcl_4_pcl_18ConditionalRemoval___cinit(__pyx_obj_3pcl_4_pcl_ConditionalRemoval*, __pyx_obj_3pcl_4_pcl_ConditionAnd*)’:
pcl/_pcl_180.cpp:53268:153: error: no matching function for call to ‘pcl::ConditionalRemovalpcl::PointXYZ::ConditionalRemoval(__pyx_t_3pcl_15pcl_filters_180_ConditionBasePtr_t, NULL)’
t(((__pyx_t_3pcl_15pcl_filters_180_ConditionBasePtr_t)__pyx_v_cond->me), NULL);
^
In file included from pcl/_pcl_180.cpp:581:0:
/usr/include/pcl-1.8/pcl/filters/conditional_removal.h:618:7: note: candidate: pcl::ConditionalRemoval::ConditionalRemoval(int) [with PointT = pcl::PointXYZ]
ConditionalRemoval (int extract_removed_indices = false) :
^
/usr/include/pcl-1.8/pcl/filters/conditional_removal.h:618:7: note: candidate expects 1 argument, 2 provided
/usr/include/pcl-1.8/pcl/filters/conditional_removal.h:594:9: note: candidate: pcl::ConditionalRemovalpcl::PointXYZ::ConditionalRemoval(const pcl::ConditionalRemovalpcl::PointXYZ&)
class ConditionalRemoval : public Filter
^
/usr/include/pcl-1.8/pcl/filters/conditional_removal.h:594:9: note: candidate expects 1 argument, 2 provided
pcl/_pcl_180.cpp: In function ‘PyObject* __pyx_pf_3pcl_4_pcl_18MovingLeastSquares_8set_polynomial_fit(__pyx_obj_3pcl_4_pcl_MovingLeastSquares*, bool)’:
pcl/_pcl_180.cpp:55183:49: warning: ‘void pcl::MovingLeastSquares<PointInT, PointOutT>::setPolynomialFit(bool) [with PointInT = pcl::PointXYZ; PointOutT = pcl::PointXYZ]’ is deprecated: [pcl::surface::MovingLeastSquares::setPolynomialFit] setPolynomialFit is deprecated. Please use setPolynomialOrder instead. [-Wdeprecated-declarations]
__pyx_v_self->me->setPolynomialFit(__pyx_v_fit);
^
In file included from pcl/_pcl_180.cpp:603:0:
/usr/include/pcl-1.8/pcl/surface/mls.h:356:7: note: declared here
setPolynomialFit (bool polynomial_fit)
^
pcl/_pcl_180.cpp: In function ‘PyObject* __pyx_pf_3pcl_4_pcl_30MovingLeastSquares_PointXYZRGB_8set_polynomial_fit(__pyx_obj_3pcl_4_pcl_MovingLeastSquares_PointXYZRGB*, int)’:
pcl/_pcl_180.cpp:55775:49: warning: ‘void pcl::MovingLeastSquares<PointInT, PointOutT>::setPolynomialFit(bool) [with PointInT = pcl::PointXYZRGB; PointOutT = pcl::PointXYZRGB]’ is deprecated: [pcl::surface::MovingLeastSquares::setPolynomialFit] setPolynomialFit is deprecated. Please use setPolynomialOrder instead. [-Wdeprecated-declarations]
__pyx_v_self->me->setPolynomialFit(__pyx_v_fit);
^
In file included from pcl/_pcl_180.cpp:603:0:
/usr/include/pcl-1.8/pcl/surface/mls.h:356:7: note: declared here
setPolynomialFit (bool polynomial_fit)
^
pcl/_pcl_180.cpp: In function ‘PyObject* __pyx_pf_3pcl_4_pcl_31MovingLeastSquares_PointXYZRGBA_8set_polynomial_fit(__pyx_obj_3pcl_4_pcl_MovingLeastSquares_PointXYZRGBA*, int)’:
pcl/_pcl_180.cpp:56250:49: warning: ‘void pcl::MovingLeastSquares<PointInT, PointOutT>::setPolynomialFit(bool) [with PointInT = pcl::PointXYZRGBA; PointOutT = pcl::PointXYZRGBA]’ is deprecated: [pcl::surface::MovingLeastSquares::setPolynomialFit] setPolynomialFit is deprecated. Please use setPolynomialOrder instead. [-Wdeprecated-declarations]
__pyx_v_self->me->setPolynomialFit(__pyx_v_fit);
^
In file included from pcl/_pcl_180.cpp:603:0:
/usr/include/pcl-1.8/pcl/surface/mls.h:356:7: note: declared here
setPolynomialFit (bool polynomial_fit)
^
error: command 'gcc' failed with exit status 1

[tryssss]

@ljc19800331 , sorry, I don't have time to read your text. But I can give you the step what I use to figure out my problem..
wget https://github.com/PointCloudLibrary/pcl/archive/pcl-1.8.1.tar.gz
tar -xf pcl-1.8.1.tar.gz
cd pcl-pcl-1.8.1 && mkdir build && cd build
cmake ..
make
sudo make install

Then rebuild the Python-PCL. Good luck!

[ljc19800331]

@tryssss Thanks for your quick reply.

Are you using python 3 or python 2 (could you give me a version?).
Any other setting I need to make after building the python-PCL, or it just install successfully and we don't need to change anything?

Thanks for your reply.