安装链接如下：
Installation of pymc3 version with GPU support — cell2location documentation
使用下面这个方案安装到一半 开始报错
image.png
Using cached scikit_misc-0.5.2.tar.gz (298 kB)
Installing build dependencies: started
Installing build dependencies: finished with status 'error'
Pip subprocess error:
error: subprocess-exited-with-error
× installing build dependencies for scikit-misc did not run successfully.
│ exit code: 1
╰─> [52 lines of output]
Collecting meson-python>=0.15.0
Using cached meson_python-0.18.0-py3-none-any.whl.metadata (2.8 kB)
Collecting Cython>=3.0.8
Using cached cython-3.2.3-cp312-cp312-manylinux2014_x86_64.manylinux_2_ 17_x86_64.manylinux_2_28_x86_64.whl.metadata (4.5 kB)
Collecting setuptools
Using cached setuptools-80.9.0-py3-none-any.whl.metadata (6.6 kB)
Collecting wheel
Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting numpy>=2.0
Using cached numpy-2.3.5.tar.gz (20.6 MB)
Installing build dependencies: started
Installing build dependencies: finished with status 'done'
Getting requirements to build wheel: started
Getting requirements to build wheel: finished with status 'done'
Installing backend dependencies: started
Installing backend dependencies: finished with status 'done'
Preparing metadata (pyproject.toml): started
Preparing metadata (pyproject.toml): finished with status 'error'
error: subprocess-exited-with-error
× Preparing metadata (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [19 lines of output]
+ /cluster/home/gaoli/miniconda3/envs/cell2loc_env/bin/python /tmp/ pip-install-8m0nlhgg/numpy_ea251ddb410a442e815574f4bea75f0a/vendored-meson/meso n/meson.py setup /tmp/pip-install-8m0nlhgg/numpy_ea251ddb410a442e815574f4bea75f 0a /tmp/pip-install-8m0nlhgg/numpy_ea251ddb410a442e815574f4bea75f0a/.mesonpy-zg 2o5yrx -Dbuildtype=release -Db_ndebug=if-release -Db_vscrt=md --native-file=/tm p/pip-install-8m0nlhgg/numpy_ea251ddb410a442e815574f4bea75f0a/.mesonpy-zg2o5yrx /meson-python-native-file.ini
The Meson build system
Version: 1.8.3
Source dir: /tmp/pip-install-8m0nlhgg/numpy_ea251ddb410a442e815574f 4bea75f0a
Build dir: /tmp/pip-install-8m0nlhgg/numpy_ea251ddb410a442e815574f4 bea75f0a/.mesonpy-zg2o5yrx
Build type: native build
Project name: NumPy
Project version: 2.3.5
C compiler for the host machine: cc (gcc 4.8.5 "cc (GCC) 4.8.5 2015 0623 (Red Hat 4.8.5-39)")
C linker for the host machine: cc ld.bfd 2.27-41
C++ compiler for the host machine: c++ (gcc 4.8.5 "c++ (GCC) 4.8.5 20150623 (Red Hat 4.8.5-39)")
C++ linker for the host machine: c++ ld.bfd 2.27-41
Cython compiler for the host machine: cython (cython 3.2.3)
Host machine cpu family: x86_64
Host machine cpu: x86_64
../meson.build:28:4: ERROR: Problem encountered: NumPy requires GCC >= 9.3
A full log can be found at /tmp/pip-install-8m0nlhgg/numpy_ea251ddb 410a442e815574f4bea75f0a/.mesonpy-zg2o5yrx/meson-logs/meson-log.txt
[end of output]
note: This error originates from a subprocess, and is likely not a prob lem with pip.
error: metadata-generation-failed
× Encountered error while generating package metadata.
╰─> numpy
note: This is an issue with the package mentioned above, not pip.
hint: See above for details.
[end of output]
note: This error originates from a subprocess, and is likely not a problem wi th pip.
ERROR: Failed to build 'scikit-misc' when installing build dependencies for sci kit-misc
fa iled
CondaEnvException: Pip failed
显示是gcc版本不够 导致的 numpy版本装不上
然后
gcc --version
gcc (GCC) 4.8.5 20150623 (Red Hat 4.8.5-39)
Copyright (C) 2015 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
然后使用conda安装一个gcc 替换掉这个环境中gcc
使用了
conda install gcc_linux-64=9.* gxx_linux-64=9.*
然后成功安装
使用下面的代码去替换环境
export PATH="${path}/miniconda3/envs/cell2loc_env/bin:$PATH"
以及
export CC={path}/miniconda3/envs/cell2loc_env/bin/x86_64-conda-linux-gnu-gcc
export CXX={path}miniconda3/envs/cell2loc_env/bin/x86_64-conda-linux-gnu-g++
然后发现gcc还是刚才那个 就是没有用
所以检察一下环境中
ls ${path}/miniconda3/envs/cell2loc_env/bin/x86_64*
是下载好了的
是有x86_64-conda-linux-gnu-gcc的
但是没有直接的gcc
后面是进入到
~/miniconda3/envs/cell2loc_env/bin
这个文件夹中
ln -sf x86_64-conda-linux-gnu-gcc gcc
ln -sf x86_64-conda-linux-gnu-g++ g++
建立软连接后
然后which gcc就修改为使用conda环境下的了
