linux编译MPI-IS/mesh

最新推荐文章于 2024-10-11 07:57:07 发布
最新推荐文章于 2024-10-11 07:57:07 发布
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本文链接：https://blog.youkuaiyun.com/redredblue/article/details/107133579
本文档详细介绍了如何在Linux系统中编译MPI-IS/mesh项目，包括依赖库的安装、配置步骤和编译过程，适用于科学计算和并行计算领域的研究者与开发者。

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硬件：pc  +  wl-167g无线网卡软件：wl-167g官方驱动  ＋ aodv-uu.0.9.5 + fedora core 41)安装无线网卡驱动1，驱动下载  http://dlsvr01.asus.com/pub/ASUS/wireless/WL-167g/Linux_1218.zip 2,准备工作 解压网卡源码，拷贝对应内核的makefile，并更改
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这次我选择的是pytorch1.9.0的版本，上次在1.11版本中尝试安装产生了报错，查资料后修改了mesh文件夹中的makefile文件。这个是我修改后的maikefile文件，替换从github中下载到的mesh-mesh文件中的makefile文件后，应该就不会产生报错了。我也遇到过一些其他的报错，比如两个包产生冲突，可以先卸载其中的一个，psbody安装成功后再安装那个包。进入mesh文件夹（我这里是mesh-master)1、下载mesh包的源代码；也可以试着降低pip的版本。
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下载代码：https://github.com/MPI-IS/mesh。激活自己的虚拟环境，下面的操作在自己的虚拟环境里进行。麻了，又碰到这个库了，记录一下，希望对大家有用。替换为自己的boost路径，一般为。, 把mesh的依赖装好。
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感知系统网格封装 该软件包包含用于操纵网格和使其可视化的核心功能。 它需要Python 3.5+并且在Linux和macOS操作系统上受支持。 Mesh处理库支持我们的一些项目，例如 要求 您首先需要安装Boost <http> _库。 您可以编译自己的本地版本，也可以直接在Linux上运行 $ sudo apt-get install libboost-dev 或在macOS上 $ brew install boost 安装 首先，创建一个专用的Python虚拟环境并激活它： $ python3 -m venv --copies my_venv $ source my_venv/bin/activate 然后，您应该使用Makefile轻松编译并安装psbody-mesh软件包： $ BOOST_INCLUDE_DIRS=/path/to/boo
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MPI-IS/mesh库是马普学院提供的第三方库，用于处理mesh数据，官方链接：https://hub.fastgit.org/MPI-IS/mesh 官方指导如下： 其中，create a dedicated Python virtual environment这一步只是创建一个虚拟环境，笔者这里直接在自己 conda环境中操作了，完整指令如下： ...
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1.从MPICH2官网下载源代码 http://www.mcs.anl.gov/research/projects/mpich2/downloads/tarballs/1.0.8/mpich2-3.2.tar.gz2.然后，通过Xshell工具连接虚拟机文件系统，将mpich2-3.2.tar.gz放入虚拟机中。3.解压到/home/mpi/mpich2中，tar -xzvf /home/mpi/...
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至于压缩包子文件的文件名称列表"mesh-master"，这表明相关的项目文件被压缩在一个名为"mesh-master"的压缩包中。在文件管理中，后缀名为"master"的压缩包通常表示这是项目的主版本，可能是源代码仓库的根目录文件。...
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git clone https://github.com/MPI-IS/mesh.git cd mesh python setup.py build_ext --inplace ``` 3. **验证安装成功与否** 使用简单的测试脚本来检验模块加载是否正常工作。 ```python import numpy as ...
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1. 克隆MPI-IS的mesh仓库（即`psbody-mesh`）： ```bash git clone https://github.com/MPI-IS/mesh.git cd mesh ``` --- #### **步骤3：配置编译环境** 1. **使用Conda虚拟环境（推荐）** 创建并激活虚拟...
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直接用命令装就行，我服了，我还去meshlab官网下载安装包，最新的linux版本还是啥appImage,flatpakref这种安装形式，最重要的是没有meshlabserver，从2020.12版本开始就不提供meshlabserver了。我又去找以前的版本，害，2020.09版本，确实有meshlabserver。还得自己添加环境变量。meshlabserver运行截图，原来装的是2020.03版本的，那有meshlabserver也正常。等以后可能就没有了。但是直接用下面的命令就能装，我真是服了！
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文章目录1. Linux系统环境搭建1.1. 准备1.2. 获取TC32编译工具链1.3. 解压到opt文件夹1.4. 设置环境变量(以解压到/opt为例)1.5. 测试是否搭建成功1.6. 获取SDK1.7. 编译1.8. 硬件接线1.9. 烧录固件1.10. 烧录三元组1.11. 其他指令操作2. windows系统环境搭建2.1. 获取Telink IDE2.2. 安装Telink IDE2...
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(dla) root@bbbc6f9276e3:/# pip install mpi4py==3.0.3 Collecting mpi4py==3.0.3 Downloading mpi4py-3.0.3.tar.gz (1.4 MB) |################################| 1.4 MB 294 kB/s Preparing metadata (setup.py) ... done Building wheels for collected packages: mpi4py Building wheel for mpi4py (setup.py) ... error ERROR: Command errored out with exit status 1: command: /root/miniconda3/envs/dla/bin/python3.6 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-lw95xiq4/mpi4py_8b91087d72f84b52b99093b4f331a6c6/setup.py'"'"'; __file__='"'"'/tmp/pip-install-lw95xiq4/mpi4py_8b91087d72f84b52b99093b4f331a6c6/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-1b28h61h cwd: /tmp/pip-install-lw95xiq4/mpi4py_8b91087d72f84b52b99093b4f331a6c6/ Complete output (206 lines): running bdist_wheel running build running build_src running build_py creating build creating build/lib.linux-x86_64-3.6 creating build/lib.linux-x86_64-3.6/mpi4py copying src/mpi4py/run.py -> build/lib.linux-x86_64-3.6/mpi4py copying src/mpi4py/__main__.py -> build/lib.linux-x86_64-3.6/mpi4py copying src/mpi4py/__init__.py -> build/lib.linux-x86_64-3.6/mpi4py copying src/mpi4py/bench.py -> build/lib.linux-x86_64-3.6/mpi4py creating build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/pool.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/server.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/aplus.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/__main__.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/__init__.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/_lib.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/_base.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/libmpi.pxd -> build/lib.linux-x86_64-3.6/mpi4py copying src/mpi4py/__init__.pxd -> build/lib.linux-x86_64-3.6/mpi4py copying src/mpi4py/MPI.pxd -> build/lib.linux-x86_64-3.6/mpi4py creating build/lib.linux-x86_64-3.6/mpi4py/include creating build/lib.linux-x86_64-3.6/mpi4py/include/mpi4py copying src/mpi4py/include/mpi4py/mpi4py.MPI_api.h -> build/lib.linux-x86_64-3.6/mpi4py/include/mpi4py copying src/mpi4py/include/mpi4py/mpi4py.MPI.h -> build/lib.linux-x86_64-3.6/mpi4py/include/mpi4py copying src/mpi4py/include/mpi4py/mpi4py.h -> build/lib.linux-x86_64-3.6/mpi4py/include/mpi4py copying src/mpi4py/include/mpi4py/mpi4py.i -> build/lib.linux-x86_64-3.6/mpi4py/include/mpi4py copying src/mpi4py/include/mpi4py/mpi.pxi -> build/lib.linux-x86_64-3.6/mpi4py/include/mpi4py running build_clib MPI configuration: [mpi] from 'mpi.cfg' MPI C compiler: /root/miniconda3/envs/dla/bin/mpicc MPI C++ compiler: /root/miniconda3/envs/dla/bin/mpicxx MPI F compiler: /root/miniconda3/envs/dla/bin/mpifort MPI F90 compiler: /root/miniconda3/envs/dla/bin/mpif90 MPI F77 compiler: /root/miniconda3/envs/dla/bin/mpif77 checking for library 'lmpe' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o building 'mpe' dylib library creating build/temp.linux-x86_64-3.6 creating build/temp.linux-x86_64-3.6/src creating build/temp.linux-x86_64-3.6/src/lib-pmpi /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c src/lib-pmpi/mpe.c -o build/temp.linux-x86_64-3.6/src/lib-pmpi/mpe.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- warning: build_clib: command '/root/miniconda3/envs/dla/bin/mpicc' failed with exit status 1 warning: build_clib: building optional library "mpe" failed checking for library 'vt-mpi' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o checking for library 'vt.mpi' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o building 'vt' dylib library /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c src/lib-pmpi/vt.c -o build/temp.linux-x86_64-3.6/src/lib-pmpi/vt.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- warning: build_clib: command '/root/miniconda3/envs/dla/bin/mpicc' failed with exit status 1 warning: build_clib: building optional library "vt" failed checking for library 'vt-mpi' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o checking for library 'vt.mpi' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o building 'vt-mpi' dylib library /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c src/lib-pmpi/vt-mpi.c -o build/temp.linux-x86_64-3.6/src/lib-pmpi/vt-mpi.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- warning: build_clib: command '/root/miniconda3/envs/dla/bin/mpicc' failed with exit status 1 warning: build_clib: building optional library "vt-mpi" failed checking for library 'vt-hyb' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o checking for library 'vt.ompi' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o building 'vt-hyb' dylib library /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c src/lib-pmpi/vt-hyb.c -o build/temp.linux-x86_64-3.6/src/lib-pmpi/vt-hyb.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- warning: build_clib: command '/root/miniconda3/envs/dla/bin/mpicc' failed with exit status 1 warning: build_clib: building optional library "vt-hyb" failed running build_ext MPI configuration: [mpi] from 'mpi.cfg' MPI C compiler: /root/miniconda3/envs/dla/bin/mpicc MPI C++ compiler: /root/miniconda3/envs/dla/bin/mpicxx MPI F compiler: /root/miniconda3/envs/dla/bin/mpifort MPI F90 compiler: /root/miniconda3/envs/dla/bin/mpif90 MPI F77 compiler: /root/miniconda3/envs/dla/bin/mpif77 checking for dlopen() availability ... checking for header 'dlfcn.h' ... gcc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/root/miniconda3/envs/dla/include/python3.6m -c _configtest.c -o _configtest.o success! removing: _configtest.c _configtest.o success! checking for library 'dl' ... gcc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/root/miniconda3/envs/dla/include/python3.6m -c _configtest.c -o _configtest.o gcc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ _configtest.o -Lbuild/temp.linux-x86_64-3.6 -ldl -o _configtest success! removing: _configtest.c _configtest.o _configtest checking for function 'dlopen' ... gcc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/root/miniconda3/envs/dla/include/python3.6m -c _configtest.c -o _configtest.o gcc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ _configtest.o -Lbuild/temp.linux-x86_64-3.6 -ldl -o _configtest success! removing: _configtest.c _configtest.o _configtest building 'mpi4py.dl' extension gcc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -DHAVE_DLFCN_H=1 -DHAVE_DLOPEN=1 -I/root/miniconda3/envs/dla/include/python3.6m -c src/dynload.c -o build/temp.linux-x86_64-3.6/src/dynload.o gcc -pthread -shared -B /root/miniconda3/envs/dla/compiler_compat -L/root/miniconda3/envs/dla/lib -Wl,-rpath=/root/miniconda3/envs/dla/lib -Wl,--no-as-needed -Wl,--sysroot=/ build/temp.linux-x86_64-3.6/src/dynload.o -Lbuild/temp.linux-x86_64-3.6 -ldl -o build/lib.linux-x86_64-3.6/mpi4py/dl.cpython-36m-x86_64-linux-gnu.so checking for MPI compile and link ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/root/miniconda3/envs/dla/include/python3.6m -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o error: Cannot compile MPI programs. Check your configuration!!! ---------------------------------------- ERROR: Failed building wheel for mpi4py Running setup.py clean for mpi4py Failed to build mpi4py Installing collected packages: mpi4py Running setup.py install for mpi4py ... error ERROR: Command errored out with exit status 1: command: /root/miniconda3/envs/dla/bin/python3.6 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-lw95xiq4/mpi4py_8b91087d72f84b52b99093b4f331a6c6/setup.py'"'"'; __file__='"'"'/tmp/pip-install-lw95xiq4/mpi4py_8b91087d72f84b52b99093b4f331a6c6/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record /tmp/pip-record-tvroj_hd/install-record.txt --single-version-externally-managed --compile --install-headers /root/miniconda3/envs/dla/include/python3.6m/mpi4py cwd: /tmp/pip-install-lw95xiq4/mpi4py_8b91087d72f84b52b99093b4f331a6c6/ Complete output (206 lines): running install running build running build_src running build_py creating build creating build/lib.linux-x86_64-3.6 creating build/lib.linux-x86_64-3.6/mpi4py copying src/mpi4py/run.py -> build/lib.linux-x86_64-3.6/mpi4py copying src/mpi4py/__main__.py -> build/lib.linux-x86_64-3.6/mpi4py copying src/mpi4py/__init__.py -> build/lib.linux-x86_64-3.6/mpi4py copying src/mpi4py/bench.py -> build/lib.linux-x86_64-3.6/mpi4py creating build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/pool.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/server.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/aplus.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/__main__.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/__init__.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/_lib.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/futures/_base.py -> build/lib.linux-x86_64-3.6/mpi4py/futures copying src/mpi4py/libmpi.pxd -> build/lib.linux-x86_64-3.6/mpi4py copying src/mpi4py/__init__.pxd -> build/lib.linux-x86_64-3.6/mpi4py copying src/mpi4py/MPI.pxd -> build/lib.linux-x86_64-3.6/mpi4py creating build/lib.linux-x86_64-3.6/mpi4py/include creating build/lib.linux-x86_64-3.6/mpi4py/include/mpi4py copying src/mpi4py/include/mpi4py/mpi4py.MPI_api.h -> build/lib.linux-x86_64-3.6/mpi4py/include/mpi4py copying src/mpi4py/include/mpi4py/mpi4py.MPI.h -> build/lib.linux-x86_64-3.6/mpi4py/include/mpi4py copying src/mpi4py/include/mpi4py/mpi4py.h -> build/lib.linux-x86_64-3.6/mpi4py/include/mpi4py copying src/mpi4py/include/mpi4py/mpi4py.i -> build/lib.linux-x86_64-3.6/mpi4py/include/mpi4py copying src/mpi4py/include/mpi4py/mpi.pxi -> build/lib.linux-x86_64-3.6/mpi4py/include/mpi4py running build_clib MPI configuration: [mpi] from 'mpi.cfg' MPI C compiler: /root/miniconda3/envs/dla/bin/mpicc MPI C++ compiler: /root/miniconda3/envs/dla/bin/mpicxx MPI F compiler: /root/miniconda3/envs/dla/bin/mpifort MPI F90 compiler: /root/miniconda3/envs/dla/bin/mpif90 MPI F77 compiler: /root/miniconda3/envs/dla/bin/mpif77 checking for library 'lmpe' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o building 'mpe' dylib library creating build/temp.linux-x86_64-3.6 creating build/temp.linux-x86_64-3.6/src creating build/temp.linux-x86_64-3.6/src/lib-pmpi /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c src/lib-pmpi/mpe.c -o build/temp.linux-x86_64-3.6/src/lib-pmpi/mpe.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- warning: build_clib: command '/root/miniconda3/envs/dla/bin/mpicc' failed with exit status 1 warning: build_clib: building optional library "mpe" failed checking for library 'vt-mpi' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o checking for library 'vt.mpi' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o building 'vt' dylib library /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c src/lib-pmpi/vt.c -o build/temp.linux-x86_64-3.6/src/lib-pmpi/vt.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- warning: build_clib: command '/root/miniconda3/envs/dla/bin/mpicc' failed with exit status 1 warning: build_clib: building optional library "vt" failed checking for library 'vt-mpi' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o checking for library 'vt.mpi' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o building 'vt-mpi' dylib library /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c src/lib-pmpi/vt-mpi.c -o build/temp.linux-x86_64-3.6/src/lib-pmpi/vt-mpi.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- warning: build_clib: command '/root/miniconda3/envs/dla/bin/mpicc' failed with exit status 1 warning: build_clib: building optional library "vt-mpi" failed checking for library 'vt-hyb' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o checking for library 'vt.ompi' ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o building 'vt-hyb' dylib library /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -c src/lib-pmpi/vt-hyb.c -o build/temp.linux-x86_64-3.6/src/lib-pmpi/vt-hyb.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- warning: build_clib: command '/root/miniconda3/envs/dla/bin/mpicc' failed with exit status 1 warning: build_clib: building optional library "vt-hyb" failed running build_ext MPI configuration: [mpi] from 'mpi.cfg' MPI C compiler: /root/miniconda3/envs/dla/bin/mpicc MPI C++ compiler: /root/miniconda3/envs/dla/bin/mpicxx MPI F compiler: /root/miniconda3/envs/dla/bin/mpifort MPI F90 compiler: /root/miniconda3/envs/dla/bin/mpif90 MPI F77 compiler: /root/miniconda3/envs/dla/bin/mpif77 checking for dlopen() availability ... checking for header 'dlfcn.h' ... gcc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/root/miniconda3/envs/dla/include/python3.6m -c _configtest.c -o _configtest.o success! removing: _configtest.c _configtest.o success! checking for library 'dl' ... gcc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/root/miniconda3/envs/dla/include/python3.6m -c _configtest.c -o _configtest.o gcc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ _configtest.o -Lbuild/temp.linux-x86_64-3.6 -ldl -o _configtest success! removing: _configtest.c _configtest.o _configtest checking for function 'dlopen' ... gcc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/root/miniconda3/envs/dla/include/python3.6m -c _configtest.c -o _configtest.o gcc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ _configtest.o -Lbuild/temp.linux-x86_64-3.6 -ldl -o _configtest success! removing: _configtest.c _configtest.o _configtest building 'mpi4py.dl' extension gcc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -DHAVE_DLFCN_H=1 -DHAVE_DLOPEN=1 -I/root/miniconda3/envs/dla/include/python3.6m -c src/dynload.c -o build/temp.linux-x86_64-3.6/src/dynload.o gcc -pthread -shared -B /root/miniconda3/envs/dla/compiler_compat -L/root/miniconda3/envs/dla/lib -Wl,-rpath=/root/miniconda3/envs/dla/lib -Wl,--no-as-needed -Wl,--sysroot=/ build/temp.linux-x86_64-3.6/src/dynload.o -Lbuild/temp.linux-x86_64-3.6 -ldl -o build/lib.linux-x86_64-3.6/mpi4py/dl.cpython-36m-x86_64-linux-gnu.so checking for MPI compile and link ... /root/miniconda3/envs/dla/bin/mpicc -pthread -B /root/miniconda3/envs/dla/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/root/miniconda3/envs/dla/include/python3.6m -c _configtest.c -o _configtest.o -------------------------------------------------------------------------- The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH. Note that this compiler was either specified at configure time or in one of several possible environment variables. -------------------------------------------------------------------------- failure. removing: _configtest.c _configtest.o error: Cannot compile MPI programs. Check your configuration!!! ---------------------------------------- ERROR: Command errored out with exit status 1: /root/miniconda3/envs/dla/bin/python3.6 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-lw95xiq4/mpi4py_8b91087d72f84b52b99093b4f331a6c6/setup.py'"'"'; __file__='"'"'/tmp/pip-install-lw95xiq4/mpi4py_8b91087d72f84b52b99093b4f331a6c6/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record /tmp/pip-record-tvroj_hd/install-record.txt --single-version-externally-managed --compile --install-headers /root/miniconda3/envs/dla/include/python3.6m/mpi4py Check the logs for full command output.
最新发布
06-25
<think>我们正在解决用户在Linux环境下通过pip安装特定版本的mpi4py库时遇到的编译错误。错误信息是："TheOpenMPIwrappercompilerwasunabletofindthespecifiedcompilerx86_64-conda-linux-gnu-ccinyourPATH"根据引用[1]中的信息，有用户通过安装特定版本的OpenMPI解决了类似问题。具体来说，他们使用conda安装了openmpi=4.1.2。另外，考虑到用户使用的是pip安装mpi4py，而mpi4py在安装时需要编译，它依赖于一个可用的MPI实现（如OpenMPI）和C编译器。错误信息指出找不到编译器`x86_64-conda-linux-gnu-cc`，这个编译器名称看起来是conda环境中的交叉编译工具链。因此，我们可以推测用户可能是在conda环境中尝试安装，但conda环境中的编译器可能没有正确设置。解决方案思路：1.确保系统中安装了必要的编译工具（如gcc）和OpenMPI库。2.或者，使用conda直接安装mpi4py，避免从源码编译（因为conda会预编译好二进制包）。3.如果坚持使用pip安装，需要确保环境变量PATH包含所需的编译器路径。具体步骤：###方法1：使用conda安装mpi4py（推荐）如果用户正在使用conda环境，可以直接使用conda安装mpi4py，这样conda会处理好所有依赖，包括OpenMPI和编译器。```bashcondainstall-cconda-forgempi4py```这样安装的是预编译的二进制包，不需要本地编译。###方法2：通过conda安装OpenMPI和编译器，再用pip安装mpi4py如果用户希望使用pip安装特定版本的mpi4py，那么需要先确保OpenMPI和编译器已经安装并且可以在PATH中找到。根据引用[1]，安装特定版本的OpenMPI：```bashcondainstall-cconda-forgeopenmpi=4.1.2```然后，安装编译器工具链。在conda环境中，可以安装gcc：```bashcondainstall-cconda-forgegxx_linux-64#安装C++编译器（g++），如果需要C编译器，安装gcccondainstall-cconda-forgegcc_linux-64#安装C编译器（gcc）```安装后，conda的编译器工具链通常会在`$CONDA_PREFIX/bin`目录下，其中包含`x86_64-conda-linux-gnu-cc`。请确保该目录在PATH中。然后，再使用pip安装mpi4py：```bashpipinstallmpi4py```###方法3：使用系统自带的OpenMPI和编译器如果用户不想使用conda安装OpenMPI，可以尝试使用系统自带的OpenMPI和编译器。但需要确保系统已经安装了OpenMPI和gcc（或clang）。例如，在Ubuntu上：```bashsudoapt-getinstallopenmpi-binlibopenmpi-dev```然后，确保系统的gcc可用：```bashsudoapt-getinstallbuild-essential```然后，使用pip安装mpi4py：```bashpipinstallmpi4py```###方法4：设置环境变量如果已经安装了conda的编译器，但PATH中没有，可以手动设置环境变量。例如，如果conda安装在`/home/user/anaconda3`，那么编译器路径可能是：```bashexportPATH=/home/user/anaconda3/bin:$PATH```然后重试pip安装。###总结根据错误信息，最直接的方法是按照引用[1]中的做法，安装特定版本的OpenMPI，并确保安装了conda的编译器工具链（gcc_linux-64）。然后，再尝试用pip安装mpi4py。如果用户希望快速解决问题，推荐使用方法1（conda直接安装mpi4py）。§§相关问题§§1.如何检查系统中OpenMPI的安装情况？2.如何在conda环境中管理多个版本的OpenMPI？3.安装mpi4py时，如何指定链接的MPI库？</think>### 解决 MPI4py 安装编译错误 根据错误信息 `The Open MPI wrapper compiler was unable to find the specified compiler x86_64-conda-linux-gnu-cc in your PATH`，这是由 **Conda 环境中的编译器路径缺失**导致的。以下是系统化的解决方案： --- #### 解决方案步骤： 1. **激活 Conda 环境** ```bash conda activate <your_env_name> ``` 2. **安装缺失的编译器工具链** ```bash conda install -c conda-forge gcc_linux-64 gxx_linux-64 gfortran_linux-64 ``` 这会安装 Conda 专用的交叉编译工具链（包括 `x86_64-conda-linux-gnu-cc`）[^1]。 3. **验证编译器路径** ```bash which x86_64-conda-linux-gnu-cc ``` 正常应返回类似：`$CONDA_PREFIX/bin/x86_64-conda-linux-gnu-cc` 4. **安装 OpenMPI 依赖** ```bash conda install -c conda-forge openmpi=4.1.2 # 版本需与系统兼容 ``` 5. **重试安装 mpi4py** ```bash pip install mpi4py --no-cache-dir # 强制重新编译 ``` --- #### 关键原理： - **路径冲突**：Conda 环境使用独立编译器路径 `$CONDA_PREFIX/bin`，但 OpenMPI 的 `mpicc` 包装器可能未正确指向该路径[^1][^4]。 - **工具链匹配**：必须安装 `gcc_linux-64` 等 Conda 工具链，生成与 Conda 环境 ABI 兼容的二进制文件[^2][^4]。 - **版本对齐**：OpenMPI 版本需与系统 GLIBC 兼容，推荐使用 Conda-forge 的预编译版本[^1][^3]。 --- #### 验证安装： ```python from mpi4py import MPI print(MPI.Get_library_version()) # 应输出 OpenMPI 版本信息 ``` --- #### 备选方案： 若仍失败，改用 Conda 直接安装预编译版本： ```bash conda install -c conda-forge mpi4py # 跳过编译过程 ```
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