[Rtk-users] RTK for Python : installation failed
Yannick Grondin
Yannick.Grondin at surgiqual-institute.com
Tue Apr 2 03:49:01 EDT 2019
Thanks,
You are right, it is not the good Python version !
Thanks Simon,
Yannick
De : Simon Rit [mailto:simon.rit at creatis.insa-lyon.fr]
Envoyé : mardi 2 avril 2019 09:45
À : Yannick Grondin
Cc : rtk-users
Objet : Re: [Rtk-users] RTK for Python : installation failed
I'm surprised that it mentions win32. Is the used python 64 bit?
On Tue, Apr 2, 2019 at 9:41 AM Yannick Grondin <Yannick.Grondin at surgiqual-institute.com> wrote:
Hi Simon,
No, it is a 64-bit machine (with Windows 10).
Thanks anyway, I will ask to ITK.
Regards,
Yannick
De : Simon Rit [mailto:simon.rit at creatis.insa-lyon.fr]
Envoyé : mardi 2 avril 2019 09:07
À : Yannick Grondin
Cc : rtk-users
Objet : Re: [Rtk-users] RTK for Python : installation failed
Hi Yannick,
It's weird, it's trying to compile the package and I have no idea why. Are you on a 32-bit machine? It may be the cause, there is no pre-compiled version for (old) 32-bit Windows.
Since it's an ITK problem, I think the best is to ask the specialists on http://discourse.itk.org/.
Simon
On Tue, Apr 2, 2019 at 12:02 AM Yannick Grondin <Yannick.Grondin at surgiqual-institute.com> wrote:
Hi RTK users,
We have an installation which failed, although we followed the following commands for Python :
python -m pip install --upgrade pip
python -m pip install --upgrade --pre itk
python -m pip install itk-rtk
it failed after : python -m pip install --upgrade --pre itk
the error message is at the end of this email.
Do you have any idea of what we are doing wrong?
Thanks,
Yannick
____________________________
<http://www.surgiqual-institute.com/> SQI_Logo_Mail
Yannick Grondin, PhD
Radiation Physics R&D Engineer
<http://www.surgiqual-institute.com/> http://www.surgiqual-institute.com/
+33 (0) 4 58 00 38 08
Collecting itk
Using cached https://files.pythonhosted.org/packages/69/e3/4b25d14a0637696193a57ca5838c5e465b31024935eace2457188d8c9071/itk-5.0rc1.tar.gz
Building wheels for collected packages: itk
Building wheel for itk (setup.py): started
Building wheel for itk (setup.py): still running...
Building wheel for itk (setup.py): finished with status 'error'
Complete output from command D:\Softwares\python\python.exe -u -c "import setuptools, tokenize;__file__='C:\\Users\\kouka\\AppData\\Local\\Temp\\pip-install-byycnry8\\itk\\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 C:\Users\kouka\AppData\Local\Temp\pip-wheel-g_09lifp --python-tag cp37:
--------------------------------------------------------------------------------
-- Trying "Ninja" generator
--------------------------------
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--
Not searching for unused variables given on the command line.
-- The C compiler identification is MSVC 19.16.27027.1
-- Check for working C compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe
-- Check for working C compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe -- 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 MSVC 19.16.27027.1
-- Check for working CXX compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe
-- Check for working CXX compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Configuring done
-- Generating done
-- Build files have been written to: C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_cmake_test_compile/build
--
-------
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-- Trying "Ninja" generator - success
--------------------------------------------------------------------------------
-- SuperBuild - ITKPythonPackage_WHEEL_NAME:itk
-- SuperBuild -
-- SuperBuild - ITK-source-download
-- SuperBuild - ITK_SOURCE_DIR: C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-build/ITKs
-- SuperBuild - ITK-source-download[OK]
-- SuperBuild -
-- SuperBuild - Searching for python
-- SuperBuild - PYTHON_INCLUDE_DIR: D:/Softwares/python/Include
-- SuperBuild - PYTHON_LIBRARY: D:/Softwares/python/libs/python37.lib
-- SuperBuild - PYTHON_EXECUTABLE: D:/Softwares/python/python.exe
-- SuperBuild - Searching for python[OK]
-- SuperBuild - DOXYGEN_EXECUTABLE:
-- ITK CMake Cache Args -
-- SuperBuild -
-- SuperBuild - ITK => Requires ITK-source-download
-- SuperBuild - ITK_BINARY_DIR: C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-build/ITKb
-- SuperBuild - ITK[OK]
-- SuperBuild -
-- SuperBuild - ITKPythonPackage => Requires ITK
-- SuperBuild - ITKPythonPackage[OK]
-- Configuring done
-- Generating done
-- Build files have been written to: C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-build
[1/25] Creating directories for 'ITK-source-download'
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Checking out files: 100% (15746/15746), done.
Note: checking out '3a11b90d06513'.
You are in 'detached HEAD' state. You can look around, make experimental
changes and commit them, and you can discard any commits you make in this
state without impacting any branches by performing another checkout.
If you want to create a new branch to retain commits you create, you may
do so (now or later) by using -b with the checkout command again. Example:
git checkout -b <new-branch-name>
HEAD is now at 3a11b90d06 COMP: Avoid duplicate wrapping of VectorContainer with unsigned short
[3/25] No patch step for 'ITK-source-download'
[4/25] Performing update step for 'ITK-source-download'
[5/25] No configure step for 'ITK-source-download'
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[7/25] No install step for 'ITK-source-download'
[8/25] Completed 'ITK-source-download'
[9/25] Creating directories for 'ITK'
[9/25] No download step for 'ITK'
[10/25] No update step for 'ITK'
[11/25] No patch step for 'ITK'
[12/25] Performing configure step for 'ITK'
-- The CXX compiler identification is MSVC 19.16.27027.1
-- The C compiler identification is MSVC 19.16.27027.1
-- Check for working CXX compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe
-- Check for working CXX compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Check for working C compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe
-- Check for working C compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
CMake Error at CMakeLists.txt:109 (message):
ITK source code directory path length is too long (94 > 50).Please move the
ITK source code directory to a directory with a shorter path.
-- Configuring incomplete, errors occurred!
See also "C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-build/ITKb/CMakeFiles/CMakeOutput.log".
FAILED: ITKp/src/ITK-stamp/ITK-configure
cmd.exe /C "cd /D C:\Users\kouka\AppData\Local\Temp\pip-install-byycnry8\itk\_skbuild\win32-3.7\cmake-build\ITKb && D:\Softwares\cmake\bin\cmake.exe -DBUILD_TESTING:BOOL=OFF -DCMAKE_INSTALL_PREFIX:PATH=C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-install -DPY_SITE_PACKAGES_PATH:PATH=C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-install -DWRAP_ITK_INSTALL_COMPONENT_IDENTIFIER:STRING=PythonWheel -DWRAP_ITK_INSTALL_COMPONENT_PER_MODULE:BOOL=OFF -DITK_LEGACY_SILENT:BOOL=ON -DITK_WRAP_PYTHON:BOOL=ON -DITK_WRAP_PYTHON_LEGACY:BOOL=OFF -DITK_WRAP_unsigned_short:BOOL=ON -DITK_WRAP_DOC:BOOL=ON -DDOXYGEN_EXECUTABLE:FILEPATH= -DPYTHON_INCLUDE_DIR:PATH=D:/Softwares/python/Include -DPYTHON_LIBRARY:FILEPATH=D:/Softwares/python/libs/python37.lib -DPYTHON_EXECUTABLE:FILEPATH=D:/Softwares/python/python.exe -DCMAKE_BUILD_TYPE:STRING=Release -DCMAKE_MAKE_PROGRAM:FILEPATH=D:/Softwares/visualstudio/Common7/IDE/CommonExtensions/Microsoft/CMake/Ninja/ninja.exe -GNinja C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-build/ITKs && D:\Softwares\cmake\bin\cmake.exe -E touch C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-build/ITKp/src/ITK-stamp/ITK-configure"
ninja: build stopped: subcommand failed.
Traceback (most recent call last):
File "D:\Softwares\python\lib\site-packages\skbuild\setuptools_wrap.py", line 578, in setup
cmkr.make(make_args, env=env)
File "D:\Softwares\python\lib\site-packages\skbuild\cmaker.py", line 482, in make
os.path.abspath(CMAKE_BUILD_DIR())))
An error occurred while building with CMake.
Command:
"cmake" "--build" "." "--target" "install" "--config" "Release" "--"
Source directory:
C:\Users\kouka\AppData\Local\Temp\pip-install-byycnry8\itk
Working directory:
C:\Users\kouka\AppData\Local\Temp\pip-install-byycnry8\itk\_skbuild\win32-3.7\cmake-build
Please see CMake's output for more information.
----------------------------------------
Running setup.py clean for itk
Complete output from command D:\Softwares\python\python.exe -u -c "import setuptools, tokenize;__file__='C:\\Users\\kouka\\AppData\\Local\\Temp\\pip-install-byycnry8\\itk\\setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" clean --all:
running clean
'_skbuild\win32-3.7\setuptools\lib' does not exist -- can't clean it
'_skbuild\win32-3.7\setuptools\bdist.win32' does not exist -- can't clean it
'_skbuild\win32-3.7\setuptools\scripts-3.7' does not exist -- can't clean it
removing '_skbuild\win32-3.7\setuptools'
removing '_skbuild\win32-3.7\cmake-install'
removing '_skbuild\win32-3.7\cmake-build'
error: [WinError 5] Access is denied: '_skbuild\\win32-3.7\\cmake-build\\ITKs\\.git\\objects\\pack\\pack-debda3808782fb53135b9fc9cb82b15868dc57b0.idx'
----------------------------------------
Failed to build itk
Installing collected packages: itk
Running setup.py install for itk: started
Running setup.py install for itk: still running...
Running setup.py install for itk: finished with status 'error'
Complete output from command D:\Softwares\python\python.exe -u -c "import setuptools, tokenize;__file__='C:\\Users\\kouka\\AppData\\Local\\Temp\\pip-install-byycnry8\\itk\\setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record C:\Users\kouka\AppData\Local\Temp\pip-record-ri4o36nk\install-record.txt --single-version-externally-managed --compile:
--------------------------------------------------------------------------------
-- Trying "Ninja" generator
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---------------------------
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--
Not searching for unused variables given on the command line.
-- The C compiler identification is MSVC 19.16.27027.1
-- Check for working C compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe
-- Check for working C compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe -- 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 MSVC 19.16.27027.1
-- Check for working CXX compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe
-- Check for working CXX compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Configuring done
-- Generating done
-- Build files have been written to: C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_cmake_test_compile/build
--
-------
------------
-----------------
----------------------
---------------------------
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-- Trying "Ninja" generator - success
--------------------------------------------------------------------------------
-- SuperBuild - ITKPythonPackage_WHEEL_NAME:itk
-- SuperBuild -
-- SuperBuild - ITK-source-download
-- SuperBuild - ITK_SOURCE_DIR: C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-build/ITKs
-- SuperBuild - ITK-source-download[OK]
-- SuperBuild -
-- SuperBuild - Searching for python
-- SuperBuild - PYTHON_INCLUDE_DIR: D:/Softwares/python/Include
-- SuperBuild - PYTHON_LIBRARY: D:/Softwares/python/libs/python37.lib
-- SuperBuild - PYTHON_EXECUTABLE: D:/Softwares/python/python.exe
-- SuperBuild - Searching for python[OK]
-- SuperBuild - DOXYGEN_EXECUTABLE:
-- ITK CMake Cache Args -
-- SuperBuild -
-- SuperBuild - ITK => Requires ITK-source-download
-- SuperBuild - ITK_BINARY_DIR: C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-build/ITKb
-- SuperBuild - ITK[OK]
-- SuperBuild -
-- SuperBuild - ITKPythonPackage => Requires ITK
-- SuperBuild - ITKPythonPackage[OK]
-- Configuring done
-- Generating done
-- Build files have been written to: C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-build
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Checking out files: 100% (15746/15746), done.
Note: checking out '3a11b90d06513'.
You are in 'detached HEAD' state. You can look around, make experimental
changes and commit them, and you can discard any commits you make in this
state without impacting any branches by performing another checkout.
If you want to create a new branch to retain commits you create, you may
do so (now or later) by using -b with the checkout command again. Example:
git checkout -b <new-branch-name>
HEAD is now at 3a11b90d06 COMP: Avoid duplicate wrapping of VectorContainer with unsigned short
[3/25] No patch step for 'ITK-source-download'
[4/25] Performing update step for 'ITK-source-download'
[5/25] No configure step for 'ITK-source-download'
[6/25] No build step for 'ITK-source-download'
[7/25] No install step for 'ITK-source-download'
[8/25] Completed 'ITK-source-download'
[9/25] Creating directories for 'ITK'
[9/25] No download step for 'ITK'
[10/25] No update step for 'ITK'
[11/25] No patch step for 'ITK'
[12/25] Performing configure step for 'ITK'
-- The CXX compiler identification is MSVC 19.16.27027.1
-- The C compiler identification is MSVC 19.16.27027.1
-- Check for working CXX compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe
-- Check for working CXX compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Check for working C compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe
-- Check for working C compiler: D:/Softwares/visualstudio/VC/Tools/MSVC/14.16.27023/bin/Hostx86/x86/cl.exe -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
CMake Error at CMakeLists.txt:109 (message):
ITK source code directory path length is too long (94 > 50).Please move the
ITK source code directory to a directory with a shorter path.
-- Configuring incomplete, errors occurred!
See also "C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-build/ITKb/CMakeFiles/CMakeOutput.log".
FAILED: ITKp/src/ITK-stamp/ITK-configure
cmd.exe /C "cd /D C:\Users\kouka\AppData\Local\Temp\pip-install-byycnry8\itk\_skbuild\win32-3.7\cmake-build\ITKb && D:\Softwares\cmake\bin\cmake.exe -DBUILD_TESTING:BOOL=OFF -DCMAKE_INSTALL_PREFIX:PATH=C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-install -DPY_SITE_PACKAGES_PATH:PATH=C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-install -DWRAP_ITK_INSTALL_COMPONENT_IDENTIFIER:STRING=PythonWheel -DWRAP_ITK_INSTALL_COMPONENT_PER_MODULE:BOOL=OFF -DITK_LEGACY_SILENT:BOOL=ON -DITK_WRAP_PYTHON:BOOL=ON -DITK_WRAP_PYTHON_LEGACY:BOOL=OFF -DITK_WRAP_unsigned_short:BOOL=ON -DITK_WRAP_DOC:BOOL=ON -DDOXYGEN_EXECUTABLE:FILEPATH= -DPYTHON_INCLUDE_DIR:PATH=D:/Softwares/python/Include -DPYTHON_LIBRARY:FILEPATH=D:/Softwares/python/libs/python37.lib -DPYTHON_EXECUTABLE:FILEPATH=D:/Softwares/python/python.exe -DCMAKE_BUILD_TYPE:STRING=Release -DCMAKE_MAKE_PROGRAM:FILEPATH=D:/Softwares/visualstudio/Common7/IDE/CommonExtensions/Microsoft/CMake/Ninja/ninja.exe -GNinja C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-build/ITKs && D:\Softwares\cmake\bin\cmake.exe -E touch C:/Users/kouka/AppData/Local/Temp/pip-install-byycnry8/itk/_skbuild/win32-3.7/cmake-build/ITKp/src/ITK-stamp/ITK-configure"
ninja: build stopped: subcommand failed.
Traceback (most recent call last):
File "D:\Softwares\python\lib\site-packages\skbuild\setuptools_wrap.py", line 578, in setup
cmkr.make(make_args, env=env)
File "D:\Softwares\python\lib\site-packages\skbuild\cmaker.py", line 482, in make
os.path.abspath(CMAKE_BUILD_DIR())))
An error occurred while building with CMake.
Command:
"cmake" "--build" "." "--target" "install" "--config" "Release" "--"
Source directory:
C:\Users\kouka\AppData\Local\Temp\pip-install-byycnry8\itk
Working directory:
C:\Users\kouka\AppData\Local\Temp\pip-install-byycnry8\itk\_skbuild\win32-3.7\cmake-build
Please see CMake's output for more information.
----------------------------------------
Failed building wheel for itk
Failed cleaning build dir for itk
Command "D:\Softwares\python\python.exe -u -c "import setuptools, tokenize;__file__='C:\\Users\\kouka\\AppData\\Local\\Temp\\pip-install-byycnry8\\itk\\setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record C:\Users\kouka\AppData\Local\Temp\pip-record-ri4o36nk\install-record.txt --single-version-externally-managed --compile" failed with error code 1 in C:\Users\kouka\AppData\Local\Temp\pip-install-byycnry8\itk\
_____
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