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install openslide-python==1.1.1 error #9
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conda activate env创建指定版本 python 虚拟环境
conda create -n env python=3.7.4 conda activate env # To deactivate an active environment, use # # $ conda deactivate export CUDA_TOOLKIT_ROOT_DIR=/usr/local/cuda python -m pip install --upgrade setuptools pip install --upgrade pip setuptools==45.2.0 pip install -r requirements.txt安装llvmlite报错解决:RuntimeError: llvm-config failed executing, please point LLVM_CONFIG to the path for
zhang@debian:~$ pip3 install llvmlite==0.16.0 Collecting llvmlite==0.16.0 Using cached https://files.pythonhosted.org/packages/23/c7/56d7c18564783f33206b3cb6ce861a8d681e8be1a124c5651145ce5aad0f/llvmlite-0.16.0.tar.gz Building wheels for collected packages: llvmlite Running setup.py bdist_wheel for llvmlite ... error Complete output from command /usr/bin/python3 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-s7dyuobp/llvmlite/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/tmpsklqjxv1pip-wheel- --python-tag cp35: running bdist_wheel running build got version from file /tmp/pip-build-s7dyuobp/llvmlite/llvmlite/_version.py {'version': '0.16.0', 'full': '964cf1d6d725b000c769379a5efe11932fcfc551'} running build_ext /usr/bin/python3 /tmp/pip-build-s7dyuobp/llvmlite/ffi/build.py LLVM version... Traceback (most recent call last): File "/tmp/pip-build-s7dyuobp/llvmlite/ffi/build.py", line 105, in main_posix out = subprocess.check_output([llvm_config, '--version']) File "/usr/lib/python3.5/subprocess.py", line 316, in check_output **kwargs).stdout File "/usr/lib/python3.5/subprocess.py", line 383, in run with Popen(*popenargs, **kwargs) as process: File "/usr/lib/python3.5/subprocess.py", line 676, in __init__ restore_signals, start_new_session) File "/usr/lib/python3.5/subprocess.py", line 1282, in _execute_child raise child_exception_type(errno_num, err_msg) FileNotFoundError: [Errno 2] No such file or directory: 'llvm-config' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/tmp/pip-build-s7dyuobp/llvmlite/ffi/build.py", line 152, in <module> main() File "/tmp/pip-build-s7dyuobp/llvmlite/ffi/build.py", line 142, in main main_posix('linux', '.so') File "/tmp/pip-build-s7dyuobp/llvmlite/ffi/build.py", line 108, in main_posix "to the path for llvm-config" % (llvm_config,)) RuntimeError: llvm-config failed executing, please point LLVM_CONFIG to the path for llvm-config error: command '/usr/bin/python3' failed with exit status 1 ---------------------------------------- Failed building wheel for llvmlite Running setup.py clean for llvmlite Failed to build llvmlite Installing collected packages: llvmlite Running setup.py install for llvmlite ... error Complete output from command /usr/bin/python3 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-s7dyuobp/llvmlite/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-k5q48i8w-record/install-record.txt --single-version-externally-managed --compile --user --prefix=: running install running build got version from file /tmp/pip-build-s7dyuobp/llvmlite/llvmlite/_version.py {'version': '0.16.0', 'full': '964cf1d6d725b000c769379a5efe11932fcfc551'} running build_ext /usr/bin/python3 /tmp/pip-build-s7dyuobp/llvmlite/ffi/build.py LLVM version... Traceback (most recent call last): File "/tmp/pip-build-s7dyuobp/llvmlite/ffi/build.py", line 105, in main_posix out = subprocess.check_output([llvm_config, '--version']) File "/usr/lib/python3.5/subprocess.py", line 316, in check_output **kwargs).stdout File "/usr/lib/python3.5/subprocess.py", line 383, in run with Popen(*popenargs, **kwargs) as process: File "/usr/lib/python3.5/subprocess.py", line 676, in __init__ restore_signals, start_new_session) File "/usr/lib/python3.5/subprocess.py", line 1282, in _execute_child raise child_exception_type(errno_num, err_msg) FileNotFoundError: [Errno 2] No such file or directory: 'llvm-config' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/tmp/pip-build-s7dyuobp/llvmlite/ffi/build.py", line 152, in <module> main() File "/tmp/pip-build-s7dyuobp/llvmlite/ffi/build.py", line 142, in main main_posix('linux', '.so') File "/tmp/pip-build-s7dyuobp/llvmlite/ffi/build.py", line 108, in main_posix "to the path for llvm-config" % (llvm_config,)) RuntimeError: llvm-config failed executing, please point LLVM_CONFIG to the path for llvm-config error: command '/usr/bin/python3' failed with exit status 1 ---------------------------------------- Command "/usr/bin/python3 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-s7dyuobp/llvmlite/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-k5q48i8w-record/install-record.txt --single-version-externally-managed --compile --user --prefix=" failed with error code 1 in /tmp/pip-build-s7dyuobp/llvmlite/这个报错是因为找不到
llvm-config这个命令:alias llvm-config="llvm-config-3.9" export LLVM_CONFIG="/usr/bin/llvm-config-3.9"然后再安装就不会报错了:
zhang@debian:~$ pip3 install llvmlite==0.16.0 Collecting llvmlite==0.16.0 Using cached https://files.pythonhosted.org/packages/23/c7/56d7c18564783f33206b3cb6ce861a8d681e8be1a124c5651145ce5aad0f/llvmlite-0.16.0.tar.gz Building wheels for collected packages: llvmlite Running setup.py bdist_wheel for llvmlite ... done Stored in directory: /home/zhang/.cache/pip/wheels/2a/c0/a5/f0d4dc24ba9076d15b0797f84e3fc3e9a6280b56c111f0d6a2 Successfully built llvmlite Installing collected packages: llvmlite Successfully installed llvmlite-0.16.0
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Hi,
How are you? I am a PhD student in Bioinformatics and Computation Medicine department at University of Michigan. I am trying to install the "requirements.txt". There was an error when trying to install open slide-python==1.1.1:
File "/tmp/pip-install-686n_fkx/openslide-python_83c86f6362ad4cd58c21cf001e9b9bb2/setup.py", line 2, in
from setuptools import setup, Extension, Feature
ImportError: cannot import name 'Feature' from 'setuptools'
I highly appreciate if you could let me know how can I fix it!
Thank you very much,
Peijin