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February 9, 2019 17:41
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cant find numpy error with pip install
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| (py36) joncrall@Ooo:~/code/netharn$ ./setup.py clean && pip install -e . | |
| Deleting directory="./__pycache__" | |
| Deleting directory="./_skbuild" | |
| Not deleting non-existant path="./__pycache__/skbuild_pr.cpython-36.pyc" | |
| Obtaining file:///home/joncrall/code/netharn | |
| Installing build dependencies ... done | |
| Getting requirements to build wheel ... done | |
| Preparing wheel metadata ... done | |
| Requirement already satisfied: torch in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (1.0.0) | |
| Requirement already satisfied: tqdm in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (4.23.4) | |
| Requirement already satisfied: imgaug in /home/joncrall/code/imgaug (from netharn==0.1.8.dev0) (0.2.7) | |
| Requirement already satisfied: numpy in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (1.16.1) | |
| Requirement already satisfied: Cython in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (0.29.1) | |
| Requirement already satisfied: astunparse in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (1.6.1) | |
| Requirement already satisfied: cffi in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (1.11.5) | |
| Requirement already satisfied: coverage in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (4.5.1) | |
| Requirement already satisfied: scikit-build in /home/joncrall/code/scikit-build (from netharn==0.1.8.dev0) (0.8.1+22.g9566de5) | |
| Requirement already satisfied: scikit-learn in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (0.19.1) | |
| Requirement already satisfied: protobuf in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (3.6.0) | |
| Requirement already satisfied: pandas in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (0.23.3) | |
| Requirement already satisfied: Pillow in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (5.2.0) | |
| Requirement already satisfied: ubelt in /home/joncrall/code/ubelt (from netharn==0.1.8.dev0) (0.6.0) | |
| Requirement already satisfied: h5py in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (2.8.0) | |
| Requirement already satisfied: progiter in /home/joncrall/code/progiter (from netharn==0.1.8.dev0) (0.0.3) | |
| Requirement already satisfied: pygtrie in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (2.2) | |
| Requirement already satisfied: opencv-python in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (3.4.1.15) | |
| Requirement already satisfied: pytest in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (3.6.3) | |
| Requirement already satisfied: torchvision in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (0.2.1) | |
| Requirement already satisfied: matplotlib in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (2.2.2) | |
| Requirement already satisfied: parse in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (1.8.4) | |
| Requirement already satisfied: tensorboard in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (1.8.0) | |
| Requirement already satisfied: pyflakes in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (1.6.0) | |
| Requirement already satisfied: xdoctest in /home/joncrall/code/xdoctest (from netharn==0.1.8.dev0) (0.7.2) | |
| Requirement already satisfied: pyqt5; python_version > "2.7" in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (5.11.2) | |
| Requirement already satisfied: tensorboard-logger in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (0.1.0) | |
| Requirement already satisfied: easydict in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (1.7) | |
| Requirement already satisfied: pytest-cov in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (2.5.1) | |
| Requirement already satisfied: psutil in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (5.4.7) | |
| Requirement already satisfied: six in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (1.11.0) | |
| Requirement already satisfied: packaging in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from netharn==0.1.8.dev0) (17.1) | |
| Requirement already satisfied: scipy in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from imgaug->netharn==0.1.8.dev0) (1.1.0) | |
| Requirement already satisfied: scikit-image>=0.11.0 in /home/joncrall/code/scikit-image (from imgaug->netharn==0.1.8.dev0) (0.15.dev0) | |
| Requirement already satisfied: imageio in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from imgaug->netharn==0.1.8.dev0) (2.4.1) | |
| Requirement already satisfied: Shapely in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from imgaug->netharn==0.1.8.dev0) (1.6.4.post2) | |
| Requirement already satisfied: wheel<1.0,>=0.23.0 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from astunparse->netharn==0.1.8.dev0) (0.30.0) | |
| Requirement already satisfied: pycparser in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from cffi->netharn==0.1.8.dev0) (2.18) | |
| Requirement already satisfied: setuptools>=28.0.0 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from scikit-build->netharn==0.1.8.dev0) (39.0.1) | |
| Requirement already satisfied: python-dateutil>=2.5.0 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from pandas->netharn==0.1.8.dev0) (2.7.2) | |
| Requirement already satisfied: pytz>=2011k in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from pandas->netharn==0.1.8.dev0) (2018.3) | |
| Requirement already satisfied: xxhash in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from ubelt->netharn==0.1.8.dev0) (1.3.0) | |
| Requirement already satisfied: Pygments in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from ubelt->netharn==0.1.8.dev0) (2.2.0) | |
| Requirement already satisfied: timerit in /home/joncrall/code/timerit (from ubelt->netharn==0.1.8.dev0) (0.1.0) | |
| Requirement already satisfied: ordered-set in /home/joncrall/code/ordered-set (from ubelt->netharn==0.1.8.dev0) (2.0.2) | |
| Requirement already satisfied: atomicwrites>=1.0 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from pytest->netharn==0.1.8.dev0) (1.1.5) | |
| Requirement already satisfied: attrs>=17.4.0 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from pytest->netharn==0.1.8.dev0) (17.4.0) | |
| Requirement already satisfied: py>=1.5.0 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from pytest->netharn==0.1.8.dev0) (1.5.3) | |
| Requirement already satisfied: pluggy<0.7,>=0.5 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from pytest->netharn==0.1.8.dev0) (0.6.0) | |
| Requirement already satisfied: more-itertools>=4.0.0 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from pytest->netharn==0.1.8.dev0) (4.1.0) | |
| Requirement already satisfied: pyparsing!=2.0.4,!=2.1.2,!=2.1.6,>=2.0.1 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from matplotlib->netharn==0.1.8.dev0) (2.2.0) | |
| Requirement already satisfied: kiwisolver>=1.0.1 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from matplotlib->netharn==0.1.8.dev0) (1.0.1) | |
| Requirement already satisfied: cycler>=0.10 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from matplotlib->netharn==0.1.8.dev0) (0.10.0) | |
| Requirement already satisfied: bleach==1.5.0 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from tensorboard->netharn==0.1.8.dev0) (1.5.0) | |
| Requirement already satisfied: werkzeug>=0.11.10 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from tensorboard->netharn==0.1.8.dev0) (0.14.1) | |
| Requirement already satisfied: html5lib==0.9999999 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from tensorboard->netharn==0.1.8.dev0) (0.9999999) | |
| Requirement already satisfied: markdown>=2.6.8 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from tensorboard->netharn==0.1.8.dev0) (2.6.11) | |
| Requirement already satisfied: PyQt5_sip<4.20,>=4.19.11 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from pyqt5; python_version > "2.7"->netharn==0.1.8.dev0) (4.19.12) | |
| Requirement already satisfied: networkx>=2.0 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from scikit-image>=0.11.0->imgaug->netharn==0.1.8.dev0) (2.2) | |
| Requirement already satisfied: PyWavelets>=0.4.0 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from scikit-image>=0.11.0->imgaug->netharn==0.1.8.dev0) (0.5.2) | |
| Requirement already satisfied: dask[array]>=0.9.0 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from scikit-image>=0.11.0->imgaug->netharn==0.1.8.dev0) (0.20.0) | |
| Requirement already satisfied: cloudpickle>=0.2.1 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from scikit-image>=0.11.0->imgaug->netharn==0.1.8.dev0) (0.6.1) | |
| Requirement already satisfied: decorator>=4.3.0 in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from networkx>=2.0->scikit-image>=0.11.0->imgaug->netharn==0.1.8.dev0) (4.3.0) | |
| Requirement already satisfied: toolz>=0.7.3; extra == "array" in /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages (from dask[array]>=0.9.0->scikit-image>=0.11.0->imgaug->netharn==0.1.8.dev0) (0.9.0) | |
| Installing collected packages: netharn | |
| Found existing installation: netharn 0.1.8.dev0 | |
| Uninstalling netharn-0.1.8.dev0: | |
| Successfully uninstalled netharn-0.1.8.dev0 | |
| Running setup.py develop for netharn | |
| Complete output from command /home/joncrall/.local/conda/envs/py36/bin/python -c "import setuptools, tokenize;__file__='/home/joncrall/code/netharn/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: | |
| Not searching for unused variables given on the command line. | |
| -- The C compiler identification is GNU 7.2.0 | |
| -- Check for working C compiler: /home/joncrall/.local/conda/envs/py36/bin/x86_64-conda_cos6-linux-gnu-cc | |
| -- Check for working C compiler: /home/joncrall/.local/conda/envs/py36/bin/x86_64-conda_cos6-linux-gnu-cc -- works | |
| -- Detecting C compiler ABI info | |
| -- Detecting C compiler ABI info - done | |
| -- Detecting C compile features | |
| -- Detecting C compile features - done | |
| -- The CXX compiler identification is GNU 7.2.0 | |
| -- Check for working CXX compiler: /home/joncrall/.local/conda/envs/py36/bin/x86_64-conda_cos6-linux-gnu-c++ | |
| -- Check for working CXX compiler: /home/joncrall/.local/conda/envs/py36/bin/x86_64-conda_cos6-linux-gnu-c++ -- works | |
| -- Detecting CXX compiler ABI info | |
| -- Detecting CXX compiler ABI info - done | |
| -- Detecting CXX compile features | |
| -- Detecting CXX compile features - done | |
| -- The CUDA compiler identification is NVIDIA 9.2.148 | |
| -- Check for working CUDA compiler: /home/joncrall/.local/cuda/bin/nvcc | |
| -- Check for working CUDA compiler: /home/joncrall/.local/cuda/bin/nvcc -- works | |
| -- Detecting CUDA compiler ABI info | |
| -- Detecting CUDA compiler ABI info - done | |
| -- Configuring done | |
| -- Generating done | |
| -- Build files have been written to: /home/joncrall/code/netharn/_cmake_test_compile/build | |
| -- The C compiler identification is GNU 7.2.0 | |
| -- The CXX compiler identification is GNU 7.2.0 | |
| -- The CUDA compiler identification is NVIDIA 9.2.148 | |
| -- Check for working C compiler: /home/joncrall/.local/conda/envs/py36/bin/x86_64-conda_cos6-linux-gnu-cc | |
| -- Check for working C compiler: /home/joncrall/.local/conda/envs/py36/bin/x86_64-conda_cos6-linux-gnu-cc -- works | |
| -- Detecting C compiler ABI info | |
| -- Detecting C compiler ABI info - done | |
| -- Detecting C compile features | |
| -- Detecting C compile features - done | |
| -- Check for working CXX compiler: /home/joncrall/.local/conda/envs/py36/bin/x86_64-conda_cos6-linux-gnu-c++ | |
| -- Check for working CXX compiler: /home/joncrall/.local/conda/envs/py36/bin/x86_64-conda_cos6-linux-gnu-c++ -- works | |
| -- Detecting CXX compiler ABI info | |
| -- Detecting CXX compiler ABI info - done | |
| -- Detecting CXX compile features | |
| -- Detecting CXX compile features - done | |
| -- Check for working CUDA compiler: /home/joncrall/.local/cuda/bin/nvcc | |
| -- Check for working CUDA compiler: /home/joncrall/.local/cuda/bin/nvcc -- works | |
| -- Detecting CUDA compiler ABI info | |
| -- Detecting CUDA compiler ABI info - done | |
| -- Found PythonInterp: /home/joncrall/.local/conda/envs/py36/bin/python (found version "3.6.5") | |
| -- Found PythonLibs: /home/joncrall/.local/conda/envs/py36/lib/libpython3.6m.so (found version "3.6.5") | |
| -- Looking for pthread.h | |
| -- Looking for pthread.h - found | |
| -- Looking for pthread_create | |
| -- Looking for pthread_create - not found | |
| -- Looking for pthread_create in pthreads | |
| -- Looking for pthread_create in pthreads - not found | |
| -- Looking for pthread_create in pthread | |
| -- Looking for pthread_create in pthread - found | |
| -- Found Threads: TRUE | |
| CMake Warning at /tmp/pip-build-env-stwozqu7/overlay/lib/python3.6/site-packages/cmake/data/share/cmake-3.13/Modules/FindCUDA.cmake:900 (message): | |
| Expecting to find librt for libcudart_static, but didn't find it. | |
| Call Stack (most recent call first): | |
| CMakeLists.txt:94 (find_package) | |
| -- Found CUDA: /home/joncrall/.local/cuda (found version "9.2") | |
| -- CUDA found (include: /home/joncrall/.local/cuda/include, lib: /home/joncrall/.local/cuda/lib64/libcudart_static.a;-lpthread;dl) | |
| -- Found Cython: /home/joncrall/.local/conda/envs/py36/bin/cython | |
| CMake Error at /tmp/pip-build-env-stwozqu7/overlay/lib/python3.6/site-packages/cmake/data/share/cmake-3.13/Modules/FindPackageHandleStandardArgs.cmake:137 (message): | |
| Could NOT find NumPy (missing: NumPy_INCLUDE_DIR) (found version "") | |
| Call Stack (most recent call first): | |
| /tmp/pip-build-env-stwozqu7/overlay/lib/python3.6/site-packages/cmake/data/share/cmake-3.13/Modules/FindPackageHandleStandardArgs.cmake:378 (_FPHSA_FAILURE_MESSAGE) | |
| /tmp/pip-build-env-stwozqu7/overlay/lib/python3.6/site-packages/skbuild/resources/cmake/FindNumPy.cmake:98 (find_package_handle_standard_args) | |
| CMakeLists.txt:109 (find_package) | |
| -- Configuring incomplete, errors occurred! | |
| See also "/home/joncrall/code/netharn/_skbuild/linux-x86_64-3.6/cmake-build/CMakeFiles/CMakeOutput.log". | |
| See also "/home/joncrall/code/netharn/_skbuild/linux-x86_64-3.6/cmake-build/CMakeFiles/CMakeError.log". | |
| File "/tmp/pip-build-env-stwozqu7/overlay/lib/python3.6/site-packages/skbuild/setuptools_wrap.py", line 548, in setup | |
| languages=cmake_languages | |
| File "/tmp/pip-build-env-stwozqu7/overlay/lib/python3.6/site-packages/skbuild/cmaker.py", line 232, in configure | |
| os.path.abspath(CMAKE_BUILD_DIR))) | |
| An error occurred while configuring with CMake. | |
| Command: | |
| "cmake" "/home/joncrall/code/netharn" "-G" "Ninja" "-DCMAKE_INSTALL_PREFIX:PATH=/home/joncrall/code/netharn/_skbuild/linux-x86_64-3.6/cmake-install" "-DPYTHON_EXECUTABLE:FILEPATH=/home/joncrall/.local/conda/envs/py36/bin/python" "-DPYTHON_VERSION_STRING:STRING=3.6.5" "-DPYTHON_INCLUDE_DIR:PATH=/home/joncrall/.local/conda/envs/py36/include/python3.6m" "-DPYTHON_LIBRARY:FILEPATH=/home/joncrall/.local/conda/envs/py36/lib/libpython3.6m.so" "-DSKBUILD:BOOL=TRUE" "-DCMAKE_MODULE_PATH:PATH=/tmp/pip-build-env-stwozqu7/overlay/lib/python3.6/site-packages/skbuild/resources/cmake" "-DCMAKE_BUILD_TYPE:STRING=Release" | |
| Source directory: | |
| /home/joncrall/code/netharn | |
| Working directory: | |
| /home/joncrall/code/netharn/_skbuild/linux-x86_64-3.6/cmake-build | |
| Please see CMake's output for more information. | |
| -------------------------------------------------------------------------------- | |
| -- Trying "Ninja" generator | |
| -------------------------------- | |
| --------------------------- | |
| ---------------------- | |
| ----------------- | |
| ------------ | |
| ------- | |
| -- | |
| -- | |
| ------- | |
| ------------ | |
| ----------------- | |
| ---------------------- | |
| --------------------------- | |
| -------------------------------- | |
| -- Trying "Ninja" generator - success | |
| -------------------------------------------------------------------------------- | |
| Traceback (most recent call last): | |
| ---------------------------------------- | |
| Rolling back uninstall of netharn | |
| Moving to /home/joncrall/.local/conda/envs/py36/lib/python3.6/site-packages/netharn.egg-link | |
| from /tmp/pip-uninstall-l1vw36d5/netharn.egg-link | |
| Command "/home/joncrall/.local/conda/envs/py36/bin/python -c "import setuptools, tokenize;__file__='/home/joncrall/code/netharn/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/joncrall/code/netharn/ |
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