required_libs_linux.md

In bioinfocz/scdrake: A pipeline for droplet-based single-cell RNA-seq data secondary analysis implemented in the drake Make-like toolkit for R language

Required libraries for Linux systems

Below you can find commands to install the required libraries for different Linux distributions and their releases. If you are not sure which release are you using, check contents of the /etc/os-release file.

Don’t forget to update the package database of your package manager. E.g. for Ubuntu: sudo apt update

• ubuntu 20.04
• ubuntu 18.04
• ubuntu 16.04
• sle 12.3
• redhat 8
• redhat 7
• opensuse 42.3
• centos 8
• centos 7

ubuntu 20.04

sudo apt-get install -y libglpk-dev
sudo apt-get install -y libgmp3-dev
sudo apt-get install -y libxml2-dev
sudo apt-get install -y pandoc
sudo apt-get install -y make
sudo apt-get install -y libicu-dev
sudo apt-get install -y libcurl4-openssl-dev
sudo apt-get install -y libssl-dev
sudo apt-get install -y libfontconfig1-dev
sudo apt-get install -y libfreetype6-dev
sudo apt-get install -y libpng-dev
sudo apt-get install -y imagemagick
sudo apt-get install -y libmagick++-dev
sudo apt-get install -y gsfonts
sudo apt-get install -y python3
sudo apt-get install -y zlib1g-dev
sudo apt-get install -y git
sudo apt-get install -y libgit2-dev
sudo apt-get install -y libzmq3-dev
sudo apt-get install -y libfribidi-dev
sudo apt-get install -y libharfbuzz-dev
sudo apt-get install -y libjpeg-dev
sudo apt-get install -y libtiff-dev

ubuntu 18.04

sudo apt-get install -y software-properties-common
sudo add-apt-repository -y ppa:cran/libgit2
sudo apt-get update
sudo apt-get install -y libglpk-dev
sudo apt-get install -y libgmp3-dev
sudo apt-get install -y libxml2-dev
sudo apt-get install -y pandoc
sudo apt-get install -y make
sudo apt-get install -y libicu-dev
sudo apt-get install -y libcurl4-openssl-dev
sudo apt-get install -y libssl-dev
sudo apt-get install -y libfontconfig1-dev
sudo apt-get install -y libfreetype6-dev
sudo apt-get install -y libpng-dev
sudo apt-get install -y imagemagick
sudo apt-get install -y libmagick++-dev
sudo apt-get install -y gsfonts
sudo apt-get install -y python3
sudo apt-get install -y zlib1g-dev
sudo apt-get install -y git
sudo apt-get install -y libgit2-dev
sudo apt-get install -y libzmq3-dev
sudo apt-get install -y libfribidi-dev
sudo apt-get install -y libharfbuzz-dev
sudo apt-get install -y libjpeg-dev
sudo apt-get install -y libtiff-dev

ubuntu 16.04

sudo apt-get install -y software-properties-common
sudo add-apt-repository -y ppa:cran/libgit2
sudo apt-get update
sudo apt-get install -y libglpk-dev
sudo apt-get install -y libgmp3-dev
sudo apt-get install -y libxml2-dev
sudo apt-get install -y pandoc
sudo apt-get install -y make
sudo apt-get install -y libicu-dev
sudo apt-get install -y libcurl4-openssl-dev
sudo apt-get install -y libssl-dev
sudo apt-get install -y libfontconfig1-dev
sudo apt-get install -y libfreetype6-dev
sudo apt-get install -y libpng-dev
sudo apt-get install -y imagemagick
sudo apt-get install -y libmagick++-dev
sudo apt-get install -y gsfonts
sudo apt-get install -y python3
sudo apt-get install -y zlib1g-dev
sudo apt-get install -y git
sudo apt-get install -y libgit2-dev
sudo apt-get install -y libzmq3-dev
sudo apt-get install -y libfribidi-dev
sudo apt-get install -y libharfbuzz-dev
sudo apt-get install -y libjpeg-dev
sudo apt-get install -y libtiff-dev

sle 12.3

sudo zypper install -y gmp-devel
sudo zypper install -y libxml2-devel
sudo zypper install -y make
sudo zypper install -y libicu-devel
sudo zypper install -y libcurl-devel
sudo zypper install -y libopenssl-devel
sudo zypper install -y fontconfig-devel
sudo zypper install -y freetype2-devel
sudo zypper install -y libpng16-compat-devel
sudo zypper install -y ImageMagick
sudo zypper install -y ImageMagick-devel
sudo zypper install -y libMagick++-devel
sudo zypper install -y python
sudo zypper install -y zlib-devel
sudo zypper install -y git
sudo zypper install -y libgit2-24
sudo zypper install -y zeromq-devel
sudo zypper install -y libjpeg8-devel
sudo zypper install -y libtiff-devel

redhat 8

sudo dnf install -y https://dl.fedoraproject.org/pub/epel/epel-release-latest-8.noarch.rpm
sudo subscription-manager repos --enable codeready-builder-for-rhel-8-x86_64-rpms
sudo dnf install -y glpk-devel
sudo dnf install -y gmp-devel
sudo dnf install -y libxml2-devel
sudo dnf install -y make
sudo dnf install -y libicu-devel
sudo dnf install -y libcurl-devel
sudo dnf install -y openssl-devel
sudo dnf install -y fontconfig-devel
sudo dnf install -y freetype-devel
sudo dnf install -y libpng-devel
sudo dnf install -y ImageMagick
sudo dnf install -y ImageMagick-c++
sudo dnf install -y python2
sudo dnf install -y zlib-devel
sudo dnf install -y git
sudo dnf install -y libgit2-devel
sudo dnf install -y zeromq-devel
sudo dnf install -y fribidi-devel
sudo dnf install -y harfbuzz-devel
sudo dnf install -y libjpeg-turbo-devel
sudo dnf install -y libtiff-devel

redhat 7

sudo rpm -q epel-release || yum install -y https://dl.fedoraproject.org/pub/epel/epel-release-latest-7.noarch.rpm
sudo yum install -y glpk-devel
sudo yum install -y gmp-devel
sudo yum install -y libxml2-devel
sudo yum install -y pandoc
sudo yum install -y make
sudo yum install -y libicu-devel
sudo yum install -y libcurl-devel
sudo yum install -y openssl-devel
sudo yum install -y fontconfig-devel
sudo yum install -y freetype-devel
sudo yum install -y libpng-devel
sudo yum install -y ImageMagick
sudo yum install -y ImageMagick-c++
sudo yum install -y python
sudo yum install -y zlib-devel
sudo yum install -y git
sudo yum install -y libgit2-devel
sudo yum install -y zeromq-devel
sudo yum install -y fribidi-devel
sudo yum install -y harfbuzz-devel
sudo yum install -y libjpeg-turbo-devel
sudo yum install -y libtiff-devel

opensuse 42.3

sudo zypper install -y gmp-devel
sudo zypper install -y libxml2-devel
sudo zypper install -y pandoc
sudo zypper install -y make
sudo zypper install -y libicu-devel
sudo zypper install -y libcurl-devel
sudo zypper install -y libopenssl-devel
sudo zypper install -y fontconfig-devel
sudo zypper install -y freetype2-devel
sudo zypper install -y libpng16-compat-devel
sudo zypper install -y ImageMagick
sudo zypper install -y ImageMagick-devel
sudo zypper install -y libMagick++-devel
sudo zypper install -y python
sudo zypper install -y zlib-devel
sudo zypper install -y git
sudo zypper install -y libgit2-devel
sudo zypper install -y zeromq-devel
sudo zypper install -y fribidi-devel
sudo zypper install -y harfbuzz-devel
sudo zypper install -y libjpeg8-devel
sudo zypper install -y libtiff-devel

centos 8

sudo dnf install -y epel-release
sudo dnf install -y dnf-plugins-core
sudo dnf config-manager --set-enabled powertools
sudo dnf install -y glpk-devel
sudo dnf install -y gmp-devel
sudo dnf install -y libxml2-devel
sudo dnf install -y pandoc
sudo dnf install -y make
sudo dnf install -y libicu-devel
sudo dnf install -y libcurl-devel
sudo dnf install -y openssl-devel
sudo dnf install -y fontconfig-devel
sudo dnf install -y freetype-devel
sudo dnf install -y libpng-devel
sudo dnf install -y ImageMagick
sudo dnf install -y ImageMagick-c++-devel
sudo dnf install -y python2
sudo dnf install -y zlib-devel
sudo dnf install -y git
sudo dnf install -y libgit2-devel
sudo dnf install -y zeromq-devel
sudo dnf install -y fribidi-devel
sudo dnf install -y harfbuzz-devel
sudo dnf install -y libjpeg-turbo-devel
sudo dnf install -y libtiff-devel

centos 7

sudo yum install -y epel-release
sudo yum install -y glpk-devel
sudo yum install -y gmp-devel
sudo yum install -y libxml2-devel
sudo yum install -y pandoc
sudo yum install -y make
sudo yum install -y libicu-devel
sudo yum install -y libcurl-devel
sudo yum install -y openssl-devel
sudo yum install -y fontconfig-devel
sudo yum install -y freetype-devel
sudo yum install -y libpng-devel
sudo yum install -y ImageMagick
sudo yum install -y ImageMagick-c++-devel
sudo yum install -y python
sudo yum install -y zlib-devel
sudo yum install -y git
sudo yum install -y libgit2-devel
sudo yum install -y zeromq-devel
sudo yum install -y fribidi-devel
sudo yum install -y harfbuzz-devel
sudo yum install -y libjpeg-turbo-devel
sudo yum install -y libtiff-devel

bioinfocz/scdrake documentation built on Sept. 19, 2024, 4:43 p.m.