romxero/Blaster_BioRuby_Singularity:latest

$ singularity pull shub://romxero/Blaster_BioRuby_Singularity:latest

Singularity Recipe

Bootstrap: docker
From: ubuntu:16.04

%labels
Author "Randall Cab White - rcwhite@stanford.edu"

#########
#%setup
#########

##Just grabbing default packages from ubuntu repository
%post
	apt-get -ym update
	apt-get -ym install wget curl gnupg2
	apt-get -ym install git cmake build-essential

#making the software cache dir
	mkdir -p /software_cache

#changing directory
	cd /software_cache
	
#Getting RVM 
	gpg2 --recv-keys 409B6B1796C275462A1703113804BB82D39DC0E3 7D2BAF1CF37B13E2069D6956105BD0E739499BDB
	\curl -sSL https://get.rvm.io | bash -s stable

#Grab the old ruby version 
	wget https://cache.ruby-lang.org/pub/ruby/1.8/ruby-1.8.7.tar.gz
	tar zxvf ruby-1.8.7.tar.gz
	cd ruby* 
	./configure
	make
	make install


#changing directory
	cd /software_cache

#bioruby download
	wget http://bioruby.org/archive/bioruby-1.5.2.tar.gz
	tar zxvf bioruby-1.5.2.tar.gz
	cd bioruby-1.5.2
	ruby setup.rb

#changing directory
	cd /software_cache


#Grab RubyGems 1.8
	wget https://github.com/rubygems/rubygems/archive/v1.8.30.tar.gz
	tar zxvf v1.8.30.tar.gz 
	cd rubygems-1.8.30/
	ruby setup.rb 

%runscript
	exec /usr/local/bin/ruby "$@"

%environment
	export IMAGE_NAME="BioRuby"

Collection

• Name: romxero/Blaster_BioRuby_Singularity
• License: None

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