bhattlab/bhattlab_workflows:align
$ singularity pull shub://bhattlab/bhattlab_workflows:align
Singularity Recipe
# Singularity environment definition for aligning and processing reads
# Eli Moss
# elimoss@stanford.edu
bootstrap: docker
from: ubuntu:19.04
# this command assumes at least singularity 2.3
%environment
PATH="/usr/local/anaconda/bin:$PATH"
%post
apt-get update
apt-get install -y wget bzip2 \
ca-certificates
apt-get clean
# install anaconda
if [ ! -d /usr/local/anaconda ]; then
wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh \
-O ~/anaconda.sh && \
bash ~/anaconda.sh -b -p /usr/local/anaconda && \
rm ~/anaconda.sh
fi
export PATH="/usr/local/anaconda/bin:$PATH"
conda config --set remote_read_timeout_secs 600
#install plotting stuff
conda install -y -c conda-forge -c bioconda \
bwa samtools
Collection
- Name: bhattlab/bhattlab_workflows
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/bhattlab-bhattlab_workflows-align |
collection name | bhattlab/bhattlab_workflows |
branch | singularity |
tag | align |
commit | c04c1e48806a0d5de6f8adb6680564923f51b32a |
version (container hash) | e2a9f73a872f9eddc5b69ee562f9da4a |
build date | 2020-01-24T23:05:15.446Z |
size (MB) | 731 |
size (bytes) | 301707295 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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