tommyod
commented
3 years ago Python 3.9 is not supported due to dependencies not being supported it fully (yet). Use Python 3.8 instead.
Closed mbr085 closed 3 years ago
tommyod
commented
3 years ago Python 3.9 is not supported due to dependencies not being supported it fully (yet). Use Python 3.8 instead.
mbr085
commented
3 years ago Rebuilding from cython solved the issue.
tommyod
commented
3 years ago Great! :+1:
mbr085
commented
3 years ago Now it installed, but it might not work... I will see what happens and report back if I have any issues.
Here is the output from pip install KDEpy
Collecting KDEpy Using cached KDEpy-1.0.2.tar.gz (136 kB) Requirement already satisfied: numpy>=1.14.2 in /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/lib/python3.9/site-packages (from KDEpy) (1.19.4) Requirement already satisfied: scipy>=1.0.1 in /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/lib/python3.9/site-packages (from KDEpy) (1.5.4) Requirement already satisfied: matplotlib>=2.2.0 in /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/lib/python3.9/site-packages (from KDEpy) (3.3.3) Requirement already satisfied: cycler>=0.10 in /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/lib/python3.9/site-packages (from matplotlib>=2.2.0->KDEpy) (0.10.0) Requirement already satisfied: python-dateutil>=2.1 in /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/lib/python3.9/site-packages (from matplotlib>=2.2.0->KDEpy) (2.8.1) Requirement already satisfied: numpy>=1.14.2 in /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/lib/python3.9/site-packages (from KDEpy) (1.19.4) Requirement already satisfied: kiwisolver>=1.0.1 in /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/lib/python3.9/site-packages (from matplotlib>=2.2.0->KDEpy) (1.3.1) Requirement already satisfied: pillow>=6.2.0 in /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/lib/python3.9/site-packages (from matplotlib>=2.2.0->KDEpy) (8.0.1) Requirement already satisfied: pyparsing!=2.0.4,!=2.1.2,!=2.1.6,>=2.0.3 in /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/lib/python3.9/site-packages (from matplotlib>=2.2.0->KDEpy) (2.4.7) Requirement already satisfied: six in /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/lib/python3.9/site-packages (from cycler>=0.10->matplotlib>=2.2.0->KDEpy) (1.15.0) Requirement already satisfied: six in /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/lib/python3.9/site-packages (from cycler>=0.10->matplotlib>=2.2.0->KDEpy) (1.15.0) Requirement already satisfied: numpy>=1.14.2 in /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/lib/python3.9/site-packages (from KDEpy) (1.19.4) Building wheels for collected packages: KDEpy Building wheel for KDEpy (setup.py): started Building wheel for KDEpy (setup.py): finished with status 'error' ERROR: Command errored out with exit status 1: command: /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/bin/python -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-w9uncvgw/kdepy_5ea3cd831da8443687772eb1fb15396c/setup.py'"'"'; file='"'"'/tmp/pip-install-w9uncvgw/kdepy_5ea3cd831da8443687772eb1fb15396c/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(file);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-_feitbkb cwd: /tmp/pip-install-w9uncvgw/kdepy_5ea3cd831da8443687772eb1fb15396c/ Complete output (156 lines): running bdist_wheel running build running build_py creating build creating build/lib.linux-x86_64-3.9 creating build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/binning.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/bw_selection.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/kernel_funcs.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/utils.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/BaseKDE.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/FFTKDE.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/NaiveKDE.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/init.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/TreeKDE.py -> build/lib.linux-x86_64-3.9/KDEpy warning: build_py: byte-compiling is disabled, skipping.
running build_ext skipping 'KDEpy/cutils.c' Cython extension (up-to-date) building 'cutils' extension creating build/temp.linux-x86_64-3.9 creating build/temp.linux-x86_64-3.9/KDEpy gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -march=x86-64 -mtune=generic -O3 -pipe -fno-plt -fno-semantic-interposition -march=x86-64 -mtune=generic -O3 -pipe -fno-plt -march=x86-64 -mtune=generic -O3 -pipe -fno-plt -fPIC -I/home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/lib/python3.9/site-packages/numpy/core/include -I/home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/include -I/usr/include/python3.9 -c KDEpy/cutils.c -o build/temp.linux-x86_64-3.9/KDEpy/cutils.o KDEpy/cutils.c: In function ‘Pyx_modinit_type_init_code’: KDEpy/cutils.c:18644:25: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 18644 | pyx_type_pyx_array.tp_print = 0; | ^ KDEpy/cutils.c:18649:31: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 18649 | pyxtypepyx_MemviewEnum.tp_print = 0; | ^ KDEpy/cutils.c:18664:30: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 18664 | pyxtypepyx_memoryview.tp_print = 0; | ^ KDEpy/cutils.c:18677:35: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 18677 | pyxtypepyx_memoryviewslice.tp_print = 0; | ^ KDEpy/cutils.c: In function ‘__Pyx_ParseOptionalKeywords’: KDEpy/cutils.c:19320:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 19320 | (PyUnicode_GET_SIZE(name) != PyUnicode_GET_SIZE(key)) ? 1 : | ^ In file included from /usr/include/python3.9/unicodeobject.h:1026, from /usr/include/python3.9/Python.h:97, from KDEpy/cutils.c:4: /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { | ^
~~~~~KDEpy/cutils.c:19320:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 19320 | (PyUnicode_GET_SIZE(*name) != PyUnicode_GET_SIZE(key)) ? 1 : | ^ In file included from /usr/include/python3.9/unicodeobject.h:1026, from /usr/include/python3.9/Python.h:97, from KDEpy/cutils.c:4: /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE ) PyUnicode_AsUnicode( | ^~~~~~~ KDEpy/cutils.c:19320:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 19320 | (PyUnicode_GET_SIZE(name) != PyUnicode_GET_SIZE(key)) ? 1 : | ^ In file included from /usr/include/python3.9/unicodeobject.h:1026, from /usr/include/python3.9/Python.h:97, from KDEpy/cutils.c:4: /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { | ^~~~~~KDEpy/cutils.c:19320:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 19320 | (PyUnicode_GET_SIZE(name) != PyUnicode_GET_SIZE(key)) ? 1 : | ^ In file included from /usr/include/python3.9/unicodeobject.h:1026, from /usr/include/python3.9/Python.h:97, from KDEpy/cutils.c:4: /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { | ^~~~~~KDEpy/cutils.c:19320:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 19320 | (PyUnicode_GET_SIZE(*name) != PyUnicode_GET_SIZE(key)) ? 1 : | ^ In file included from /usr/include/python3.9/unicodeobject.h:1026, from /usr/include/python3.9/Python.h:97, from KDEpy/cutils.c:4: /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE ) PyUnicode_AsUnicode( | ^~~~~~~ KDEpy/cutils.c:19320:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 19320 | (PyUnicode_GET_SIZE(name) != PyUnicode_GET_SIZE(key)) ? 1 : | ^ In file included from /usr/include/python3.9/unicodeobject.h:1026, from /usr/include/python3.9/Python.h:97, from KDEpy/cutils.c:4: /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { | ^~~~~~KDEpy/cutils.c:19336:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 19336 | (PyUnicode_GET_SIZE(argname) != PyUnicode_GET_SIZE(key)) ? 1 : | ^ In file included from /usr/include/python3.9/unicodeobject.h:1026, from /usr/include/python3.9/Python.h:97, from KDEpy/cutils.c:4: /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { | ^~~~~~KDEpy/cutils.c:19336:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 19336 | (PyUnicode_GET_SIZE(*argname) != PyUnicode_GET_SIZE(key)) ? 1 : | ^ In file included from /usr/include/python3.9/unicodeobject.h:1026, from /usr/include/python3.9/Python.h:97, from KDEpy/cutils.c:4: /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE ) PyUnicode_AsUnicode( | ^~~~~~~ KDEpy/cutils.c:19336:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 19336 | (PyUnicode_GET_SIZE(argname) != PyUnicode_GET_SIZE(key)) ? 1 : | ^ In file included from /usr/include/python3.9/unicodeobject.h:1026, from /usr/include/python3.9/Python.h:97, from KDEpy/cutils.c:4: /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { | ^~~~~~KDEpy/cutils.c:19336:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 19336 | (PyUnicode_GET_SIZE(argname) != PyUnicode_GET_SIZE(key)) ? 1 : | ^ In file included from /usr/include/python3.9/unicodeobject.h:1026, from /usr/include/python3.9/Python.h:97, from KDEpy/cutils.c:4: /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { | ^~~~~~KDEpy/cutils.c:19336:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 19336 | (PyUnicode_GET_SIZE(*argname) != PyUnicode_GET_SIZE(key)) ? 1 : | ^ In file included from /usr/include/python3.9/unicodeobject.h:1026, from /usr/include/python3.9/Python.h:97, from KDEpy/cutils.c:4: /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE ) PyUnicode_AsUnicode( | ^~~~~~~ KDEpy/cutils.c:19336:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 19336 | (PyUnicode_GET_SIZE(argname) != PyUnicode_GET_SIZE(key)) ? 1 : | ^ In file included from /usr/include/python3.9/unicodeobject.h:1026, from /usr/include/python3.9/Python.h:97, from KDEpy/cutils.c:4: /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { | ^~~~~~KDEpy/cutils.c: In function ‘Pyx_decode_c_string’: KDEpy/cutils.c:20396:9: warning: ‘PyUnicode_FromUnicode’ is deprecated [-Wdeprecated-declarations] 20396 | return PyUnicode_FromUnicode(NULL, 0); | ^~In file included from /usr/include/python3.9/unicodeobject.h:1026, from /usr/include/python3.9/Python.h:97, from KDEpy/cutils.c:4: /usr/include/python3.9/cpython/unicodeobject.h:551:42: note: declared here 551 | Py_DEPRECATED(3.3) PyAPI_FUNC(PyObject*) PyUnicode_FromUnicode( | ^~~~~error: command '/usr/bin/gcc' failed with exit code 1ERROR: Failed building wheel for KDEpy Running setup.py clean for KDEpy Failed to build KDEpy Installing collected packages: KDEpy Running setup.py install for KDEpy: started Running setup.py install for KDEpy: finished with status 'error' ERROR: Command errored out with exit status 1: command: /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/bin/python -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-w9uncvgw/kdepy_5ea3cd831da8443687772eb1fb15396c/setup.py'"'"'; file='"'"'/tmp/pip-install-w9uncvgw/kdepy_5ea3cd831da8443687772eb1fb15396c/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(file);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' install --record /tmp/pip-record-rx_8z9nx/install-record.txt --single-version-externally-managed --compile --install-headers /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/include/site/python3.9/KDEpy cwd: /tmp/pip-install-w9uncvgw/kdepy_5ea3cd831da8443687772eb1fb15396c/ Complete output (156 lines): running install running build running build_py creating build creating build/lib.linux-x86_64-3.9 creating build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/binning.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/bw_selection.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/kernel_funcs.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/utils.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/BaseKDE.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/FFTKDE.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/NaiveKDE.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/init.py -> build/lib.linux-x86_64-3.9/KDEpy copying KDEpy/TreeKDE.py -> build/lib.linux-x86_64-3.9/KDEpy warning: build_py: byte-compiling is disabled, skipping.
ERROR: Command errored out with exit status 1: /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/bin/python -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-w9uncvgw/kdepy_5ea3cd831da8443687772eb1fb15396c/setup.py'"'"'; file='"'"'/tmp/pip-install-w9uncvgw/kdepy_5ea3cd831da8443687772eb1fb15396c/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(file);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' install --record /tmp/pip-record-rx_8z9nx/install-record.txt --single-version-externally-managed --compile --install-headers /home/mbr085/.virtualenvs/mergeforest-mvpxmIAj/include/site/python3.9/KDEpy Check the logs for full command output.