hi Joel.
Please find attached full log for 'pip install --editable .'
*Are you sure you want to build from source?*
*[Well, I'm trying the development version, since I'd like to help fix
bugs. Wait, so you mean we are experiencing issue with source install. Oh
man!. if Yes, then can you please suggest some other method. **(i mean
apart from stable install) OR is it ok to go for stable install? ]*
Thanks
On Sat, Dec 2, 2017 at 5:00 PM, Joel Nothman <joel.noth...@gmail.com> wrote:
> There's not enough information there for us to help you. Please provide
> the full log if possible. Are you sure you want to build from source?
>
> On 2 December 2017 at 08:05, Aniket Meshram <aniket.g.mesh...@gmail.com>
> wrote:
>
>> hi,
>>
>> I'm following the 'ways to contribute page'
>>
>> After forking and cloning, I ran the command 'python setup.py build_ext
>> --inplace'
>> which is giving me the following error:
>>
>> cc1: some warnings being treated as errors
>> error: Command "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
>> -I/usr/lib/python2.7/dist-packages/numpy/core/include
>> -I/usr/lib/python2.7/dist-packages/numpy/core/include
>> -I/usr/include/python2.7 -c sklearn/neighbors/quad_tree.c -o
>> build/temp.linux-x86_64-2.7/sklearn/neighbors/quad_tree.o" failed with
>> exit status 1
>>
>> AnnGM
>>
>> _______________________________________________
>> scikit-learn mailing list
>> scikit-learn@python.org
>> https://mail.python.org/mailman/listinfo/scikit-learn
>>
>>
>
> _______________________________________________
> scikit-learn mailing list
> scikit-learn@python.org
> https://mail.python.org/mailman/listinfo/scikit-learn
>
>
--
Regards,
Aniket G. Meshram
sumedh@sumedh-Inspiron-N4010:scikit-learn $ sudo -H pip install --editable .
Obtaining
file:///home/sumedh/Downloads/Programming/OpenSourceContributions/scikit-learn
Installing collected packages: scikit-learn
Running setup.py develop for scikit-learn
Complete output from command /usr/bin/python -c "import setuptools,
tokenize;__file__='/home/sumedh/Downloads/Programming/OpenSourceContributions/scikit-learn/setup.py';f=getattr(tokenize,
'open', open)(__file__);code=f.read().replace('\r\n',
'\n');f.close();exec(compile(code, __file__, 'exec'))" develop --no-deps:
Partial import of sklearn during the build process.
blas_opt_info:
blas_mkl_info:
libraries mkl,vml,guide not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/x86_64-linux-gnu']
NOT AVAILABLE
openblas_info:
libraries openblas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/x86_64-linux-gnu']
NOT AVAILABLE
atlas_3_10_blas_threads_info:
Setting PTATLAS=ATLAS
libraries tatlas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/x86_64-linux-gnu']
NOT AVAILABLE
atlas_3_10_blas_info:
libraries satlas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/x86_64-linux-gnu']
NOT AVAILABLE
atlas_blas_threads_info:
Setting PTATLAS=ATLAS
libraries ptf77blas,ptcblas,atlas not found in ['/usr/local/lib',
'/usr/lib', '/usr/lib/x86_64-linux-gnu']
NOT AVAILABLE
atlas_blas_info:
libraries f77blas,cblas,atlas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/x86_64-linux-gnu']
NOT AVAILABLE
/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1640:
UserWarning:
Atlas (http://math-atlas.sourceforge.net/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [atlas]) or by setting
the ATLAS environment variable.
warnings.warn(AtlasNotFoundError.__doc__)
blas_info:
libraries blas not found in ['/usr/local/lib', '/usr/lib',
'/usr/lib/x86_64-linux-gnu']
NOT AVAILABLE
/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1649:
UserWarning:
Blas (http://www.netlib.org/blas/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [blas]) or by setting
the BLAS environment variable.
warnings.warn(BlasNotFoundError.__doc__)
blas_src_info:
NOT AVAILABLE
/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1652:
UserWarning:
Blas (http://www.netlib.org/blas/) sources not found.
Directories to search for the sources can be specified in the
numpy/distutils/site.cfg file (section [blas_src]) or by setting
the BLAS_SRC environment variable.
warnings.warn(BlasSrcNotFoundError.__doc__)
NOT AVAILABLE
sklearn/setup.py:72: UserWarning:
Blas (http://www.netlib.org/blas/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [blas]) or by setting
the BLAS environment variable.
warnings.warn(BlasNotFoundError.__doc__)
missing cimport in module 'sklearn.neighbors':
sklearn/manifold/_barnes_hut_tsne.pyx
running develop
running build_scripts
running egg_info
running build_src
build_src
building library "libsvm-skl" sources
building library "cblas" sources
building extension "sklearn.__check_build._check_build" sources
building extension "sklearn.cluster._dbscan_inner" sources
building extension "sklearn.cluster._hierarchical" sources
building extension "sklearn.cluster._k_means_elkan" sources
building extension "sklearn.cluster._k_means" sources
building extension "sklearn.datasets._svmlight_format" sources
building extension "sklearn.decomposition._online_lda" sources
building extension "sklearn.decomposition.cdnmf_fast" sources
building extension "sklearn.ensemble._gradient_boosting" sources
building extension "sklearn.feature_extraction._hashing" sources
building extension "sklearn.manifold._utils" sources
building extension "sklearn.manifold._barnes_hut_tsne" sources
building extension "sklearn.metrics.pairwise_fast" sources
building extension "sklearn.metrics/cluster.expected_mutual_info_fast"
sources
building extension "sklearn.neighbors.ball_tree" sources
building extension "sklearn.neighbors.kd_tree" sources
building extension "sklearn.neighbors.dist_metrics" sources
building extension "sklearn.neighbors.typedefs" sources
building extension "sklearn.neighbors.quad_tree" sources
building extension "sklearn.tree._tree" sources
building extension "sklearn.tree._splitter" sources
building extension "sklearn.tree._criterion" sources
building extension "sklearn.tree._utils" sources
building extension "sklearn.svm.libsvm" sources
building extension "sklearn.svm.liblinear" sources
building extension "sklearn.svm.libsvm_sparse" sources
building extension "sklearn._isotonic" sources
building extension "sklearn.linear_model.cd_fast" sources
building extension "sklearn.linear_model.sgd_fast" sources
building extension "sklearn.linear_model.sag_fast" sources
building extension "sklearn.utils.sparsefuncs_fast" sources
building extension "sklearn.utils.arrayfuncs" sources
building extension "sklearn.utils.murmurhash" sources
building extension "sklearn.utils.lgamma" sources
building extension "sklearn.utils.graph_shortest_path" sources
building extension "sklearn.utils.fast_dict" sources
building extension "sklearn.utils.seq_dataset" sources
building extension "sklearn.utils.weight_vector" sources
building extension "sklearn.utils._random" sources
building extension "sklearn.utils._logistic_sigmoid" sources
building data_files sources
build_src: building npy-pkg config files
writing requirements to scikit_learn.egg-info/requires.txt
writing scikit_learn.egg-info/PKG-INFO
writing top-level names to scikit_learn.egg-info/top_level.txt
writing dependency_links to scikit_learn.egg-info/dependency_links.txt
warning: manifest_maker: standard file '-c' not found
reading manifest file 'scikit_learn.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
writing manifest file 'scikit_learn.egg-info/SOURCES.txt'
running build_ext
customize UnixCCompiler
customize UnixCCompiler using build_clib
customize UnixCCompiler
customize UnixCCompiler using build_ext
customize UnixCCompiler
customize UnixCCompiler using build_ext
building 'sklearn.neighbors.quad_tree' extension
compiling C sources
C compiler: 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
compile options: '-I/usr/lib/python2.7/dist-packages/numpy/core/include
-I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include/python2.7
-I/usr/include/python2.7 -c'
x86_64-linux-gnu-gcc: sklearn/neighbors/quad_tree.c
In file included from
/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1777:0,
from
/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from
/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
from sklearn/neighbors/quad_tree.c:259:
/usr/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 " \
^
sklearn/neighbors/quad_tree.c:2365:1: warning: function declaration isn’t a
prototype [-Wstrict-prototypes]
static PyObject
*__pyx_pf_7sklearn_9neighbors_9quad_tree_9_QuadTree_16test_summarize(); /*
proto */
^
sklearn/neighbors/quad_tree.c: In function
‘__pyx_f_7sklearn_9neighbors_9quad_tree_9_QuadTree_insert_point’:
sklearn/neighbors/quad_tree.c:3523:14: error: format not a string literal
and no format arguments [-Werror=format-security]
printf(__pyx_k_QuadTree_found_a_duplicate);
^
sklearn/neighbors/quad_tree.c: In function
‘__pyx_f_7sklearn_9neighbors_9quad_tree_9_QuadTree__get_cell_ndarray’:
sklearn/neighbors/quad_tree.c:6584:36: warning: passing argument 1 of
‘(PyObject * (*)(PyTypeObject *, PyArray_Descr *, int, npy_intp *, npy_intp *,
void *, int, PyObject *))*(PyArray_API + 752u)’ from incompatible pointer type
[-Wincompatible-pointer-types]
__pyx_t_2 = PyArray_NewFromDescr(((PyObject
*)__pyx_ptype_5numpy_ndarray), ((PyArray_Descr *)__pyx_t_1), 1, __pyx_v_shape,
__pyx_v_strides, ((void *)__pyx_v_self->cells), NPY_DEFAULT, Py_None); if
(unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 574;
__pyx_clineno = __LINE__; goto __pyx_L1_error;}
^
sklearn/neighbors/quad_tree.c:6584:36: note: expected ‘PyTypeObject * {aka
struct _typeobject *}’ but argument is of type ‘PyObject * {aka struct _object
*}’
sklearn/neighbors/quad_tree.c: At top level:
sklearn/neighbors/quad_tree.c:7015:18: warning: function declaration isn’t
a prototype [-Wstrict-prototypes]
static PyObject
*__pyx_pf_7sklearn_9neighbors_9quad_tree_9_QuadTree_16test_summarize() {
^
cc1: some warnings being treated as errors
In file included from
/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1777:0,
from
/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from
/usr/lib/python2.7/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
from sklearn/neighbors/quad_tree.c:259:
/usr/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 " \
^
sklearn/neighbors/quad_tree.c:2365:1: warning: function declaration isn’t a
prototype [-Wstrict-prototypes]
static PyObject
*__pyx_pf_7sklearn_9neighbors_9quad_tree_9_QuadTree_16test_summarize(); /*
proto */
^
sklearn/neighbors/quad_tree.c: In function
‘__pyx_f_7sklearn_9neighbors_9quad_tree_9_QuadTree_insert_point’:
sklearn/neighbors/quad_tree.c:3523:14: error: format not a string literal
and no format arguments [-Werror=format-security]
printf(__pyx_k_QuadTree_found_a_duplicate);
^
sklearn/neighbors/quad_tree.c: In function
‘__pyx_f_7sklearn_9neighbors_9quad_tree_9_QuadTree__get_cell_ndarray’:
sklearn/neighbors/quad_tree.c:6584:36: warning: passing argument 1 of
‘(PyObject * (*)(PyTypeObject *, PyArray_Descr *, int, npy_intp *, npy_intp *,
void *, int, PyObject *))*(PyArray_API + 752u)’ from incompatible pointer type
[-Wincompatible-pointer-types]
__pyx_t_2 = PyArray_NewFromDescr(((PyObject
*)__pyx_ptype_5numpy_ndarray), ((PyArray_Descr *)__pyx_t_1), 1, __pyx_v_shape,
__pyx_v_strides, ((void *)__pyx_v_self->cells), NPY_DEFAULT, Py_None); if
(unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 574;
__pyx_clineno = __LINE__; goto __pyx_L1_error;}
^
sklearn/neighbors/quad_tree.c:6584:36: note: expected ‘PyTypeObject * {aka
struct _typeobject *}’ but argument is of type ‘PyObject * {aka struct _object
*}’
sklearn/neighbors/quad_tree.c: At top level:
sklearn/neighbors/quad_tree.c:7015:18: warning: function declaration isn’t
a prototype [-Wstrict-prototypes]
static PyObject
*__pyx_pf_7sklearn_9neighbors_9quad_tree_9_QuadTree_16test_summarize() {
^
cc1: some warnings being treated as errors
error: Command "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
-I/usr/lib/python2.7/dist-packages/numpy/core/include
-I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include/python2.7
-I/usr/include/python2.7 -c sklearn/neighbors/quad_tree.c -o
build/temp.linux-x86_64-2.7/sklearn/neighbors/quad_tree.o" failed with exit
status 1
----------------------------------------
Command "/usr/bin/python -c "import setuptools,
tokenize;__file__='/home/sumedh/Downloads/Programming/OpenSourceContributions/scikit-learn/setup.py';f=getattr(tokenize,
'open', open)(__file__);code=f.read().replace('\r\n',
'\n');f.close();exec(compile(code, __file__, 'exec'))" develop --no-deps"
failed with error code 1 in
/home/sumedh/Downloads/Programming/OpenSourceContributions/scikit-learn/
sumedh@sumedh-Inspiron-N4010:scikit-learn $
_______________________________________________
scikit-learn mailing list
scikit-learn@python.org
https://mail.python.org/mailman/listinfo/scikit-learn
