Centos安装Singularity记录

目录

• 环境依赖
• golang安装
• Singularity安装
• 常用命令

环境依赖

sudo yum update -y && \
yum groupinstall -y 'Development Tools' && \
yum install -y \
    openssl-devel \
    libuuid-devel \
    libseccomp-devel \
    wget \
    squashfs-tools\
    cryptsetup

golang安装

sudo export VERSION=1.16.5 OS=linux ARCH=amd64 && \
wget https://studygolang.com/dl/golang/go$VERSION.$OS-$ARCH.tar.gz && \
tar -C /usr/local -xzvf go$VERSION.$OS-$ARCH.tar.gz && \
rm go$VERSION.$OS-$ARCH.tar.gz

echo 'export GOPATH=${HOME}/go' >> ~/.bashrc && \
echo 'export PATH=/usr/local/go/bin:${PATH}:${GOPATH}/bin' >> ~/.bashrc && \
source ~/.bashrc

Singularity安装

export VERSION=3.8.0 && export REL=rc.2 && # adjust this as necessary \
wget https://github.com/hpcng/singularity/releases/download/v${VERSION}-${REL}/singularity-${VERSION}-${REL}.tar.gz && \
tar -xzf singularity-${VERSION}-${REL}.tar.gz && \
cd singularity

sudo ./mconfig && \
make -C ./builddir && \
make -C ./builddir install

直接在默认路径上编译会报错：

checking: host Go compiler (at least version 1.13)... not found!

删除整个singularity目录，重新解压安装（普通用户即可）：

export VERSION=3.8.0
tar -xzf singularity-ce-${VERSION}.tar.gz
cd singularity-ce-${VERSION}
./mconfig --prefix=/opt/singularity/${VERSION}
cd builddir/
make && make install
echo "export PATH=/opt/singularity/${VERSION}/bin:\$PATH" >> ~/.bashrc

常用命令

singularity -h
singularity build  #构建镜像
singularity run    #容器内启动执行脚本
singularity exec   #镜像内执行命令
singularity shell  #执行一个 shell 脚本

Ref：
https://www.jianshu.com/p/b081c9622ddahttps://www.jianshu.com/p/b46ee066806b

公众号：Bioinfarmer。