pernillaericsson/shub_testing:v0.7

$ singularity pull shub://pernillaericsson/shub_testing:v0.7

Singularity Recipe

BootStrap: library
From: ubuntu:16.04

%help
	Singualrity image with Ubuntu 16.04, Miniconda 4.8.2 and Python3.8

%labels
	DESCRIPTION Singularity image with Ubuntu 16.04, Miniconda 4.8.2 and Python 3.8
	AUTHOR Pernilla
	VERSION v0.0.2

# RUN instruction (e.g. download files, install software)
%post
	apt-get -y update && apt-get -y upgrade
	apt-get -y install \
		build-essential wget bzip2 ca-certificates bc pbzip2 pigz tzdata 
	apt-get clean

	# Install conda
	wget https://repo.anaconda.com/miniconda/Miniconda3-py38_4.8.2-Linux-x86_64.sh -O Miniconda3-py38_4.8.2-Linux-x86_64.sh
	bash Miniconda3-py38_4.8.2-Linux-x86_64.sh -bf -p /usr/miniconda3/
	rm Miniconda3-py38_4.8.2-Linux-x86_64.sh

	
	export PATH=/usr/miniconda3/bin:$PATH 


    conda config --add channels defaults
	conda config --add channels bioconda
	conda config --add channels conda-forge
	conda config --set channel_priority false

	# Install packages here
	# conda install ...

	conda clean --all

# Test that conda works
%test
    export PATH=/usr/miniconda3/bin:$PATH
	conda --version

#%files

# ENVIRONMENT (set environment variables)
%environment 
	#export LC_ALL=en_US.utf-8
	#export LANG=en_US.utf-8
	export LC_ALL=C
	export PATH=/usr/miniconda3/bin:$PATH

# Similar to docker CMD (Default command executed when running the container)
%runscript
    $@

Collection

• Name: pernillaericsson/shub_testing
• License: None

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