[python][linux]linux安装miniconda3以及pyem

[python][linux]linux安装miniconda3以及pyem
[python][linux]linux安装miniconda3以及pyem
[python][linux]linux安装miniconda3以及pyem

download and install

wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh
bash Miniconda3-latest-Linux-x86_64.sh

配置环境变量

gedit ~/.bashrc

在.bashrc中添加miniconda3的PATH

export PATH=/home/yx/miniconda3/bin/:$PATH

save后source

source ~/.bashrc

Create a new conda environment

conda create -n pyem
conda init #初始化conda

执行

conda activate pyem

报如下错误

CommandNotFoundError: Your shell has not been properly configured to use ‘conda activate’.
To initialize your shell, run
$ conda init <SHELL_NAME>
Currently supported shells are:
-bash
-fish
-tcsh
-xonsh
-zsh
-powershell
See ‘conda init --help’ for more information and options.
IMPORTANT: You may need to close and restart your shell after running ‘conda init’.

解决方法：

[XX@XXX XXX]$ source activate #重新进入虚拟环境
(base) [XX@XXX XXX]$ conda deactivate #退出虚拟环境

继续创建环境

[XX@XXX XXX]$ conda activate pyem
(pyem) [XX@XXX XXX]$ conda install numpy scipy matplotlib seaborn numba pandas natsort
(pyem) [XX@XXX XXX]$ conda install -c conda-forge pyfftw healpy pathos

Install pyem

git clone https://github.com/asarnow/pyem.git
cd pyem
pip install --no-dependencies -e .

建立symbolic link

cd ~/bin
ln -s /path/to/pyem/*.py -t .

参考
[1]Install pyem with Miniconda
[2]conda activate激活环境出错的解决办法