J35P312/RareDisease_RNA_workflow:latest
$ singularity pull shub://J35P312/RareDisease_RNA_workflow:latest
Singularity Recipe
Bootstrap: docker
From: ubuntu:16.04
%environment
SHELL=/bin/bash
PATH=/opt/anaconda/bin:${PATH}
LC_ALL=C.UTF-8
%runscript
echo "This is what happens when you run the container..."
export PATH=/opt/anaconda/bin:${PATH}
%post
echo "Hello from inside the container"
apt-get update
apt-get -y install wget git bzip2 build-essential gcc zlib1g-dev language-pack-en-base apt-transport-https make cmake unzip python3
update-locale LC_ALL=en_US.UTF-8 LANG=en_US.UTF-8
cd /root/ && wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
cd /root/ && chmod 700 ./Miniconda3-latest-Linux-x86_64.sh
cd /root/ && bash ./Miniconda3-latest-Linux-x86_64.sh -b -p /opt/anaconda/
export PATH=/opt/anaconda/bin:${PATH}
conda config --add channels defaults
conda config --add channels conda-forge
conda config --add channels bioconda
cd /bin/ && git clone https://github.com/J35P312/BootstrapAnn.git
conda install samtools star=2.7.8a gatk4=4.2.0 pip tabix
pip install numpy
pip install scipy
Collection
- Name: J35P312/RareDisease_RNA_workflow
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/J35P312-RareDisease_RNA_workflow-latest |
collection name | J35P312/RareDisease_RNA_workflow |
branch | main |
tag | latest |
commit | f2d776902463dc26e39effa6d8c024d60dfe873c |
version (container hash) | 5617a7beb3927b6715d5f73a12fb780b |
build date | 2021-03-23T17:26:19.892Z |
size (MB) | 2188.0 |
size (bytes) | 1407647775 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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