在Anaconda环境中运行qsub [英] Running qsub with anaconda environment

问题描述

我有一个程序，该程序通常在Linux的conda环境中运行，因为我使用它来管理我的库，并遵循以下说明:

I have a program that usually runs inside a conda environmet in Linux, because I use it to manage my libraries, with this instructions:

source activate my_environment
python hello_world.py

如何在与PBS兼容的高级计算机上运行 hello_world.py .说明说明了如何运行如下所示的代码 script.sh ，并使用指令 qsub 进行调用.

How can I run hello_world.py in a high computer that works with PBS. Instructions explains to run adapting the code script.sh, shown below, and calling with the instruction qsub.

# script.sh
#!/bin/sh
#PBS -S /bin/sh
#PBS -N job_example
#PBS -l select=24
#PBS -j oe
cd $PBS_O_WORKDIR
mpiexec ./programa_mpi

如何在我的anaconda环境中通过qsub运行hello_world.py?

How do I run hello_world.py with qsub using my anaconda environment?

推荐答案

在激活环境和运行脚本之前，您需要加载Python模块.

You'll need to load the Python module before activating your environment and before running your script.

module load python3

cd $PBS_O_WORKDIR
source activate my_environment

mpiexec python hello_world.py

查看您机构的有关其Python模块的文档.在我的机构中，Anaconda是Python3的环境模块，因此您可以按照我的说明加载它.

Check the documentation for your institution regarding their Python modules. At my institution, Anaconda was the environment module for Python3, so you could load it as I have shown.

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