bsiranosian/bens_1337_workflows:snippy
$ singularity pull shub://bsiranosian/bens_1337_workflows:snippy
Singularity Recipe
BootStrap: docker
From: ubuntu:16.04
# this command assumes at least singularity 2.3
%environment
PATH="/usr/local/anaconda/bin:$PATH"
%post
apt-get update
apt-get install -y locales wget build-essential
# localle update necessary for quast
locale-gen --purge "en_US.UTF-8"
update-locale LANG="en_US.UTF-8"
# install anaconda
if [ ! -d /usr/local/anaconda ]; then
wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh \
-O ~/anaconda.sh && \
bash ~/anaconda.sh -b -p /usr/local/anaconda && \
rm ~/anaconda.sh
fi
export PATH="/usr/local/anaconda/bin:$PATH"
conda install -y -c bioconda -c conda-forge python=2.7 snippy vt vcftools bcftools \
samtools blast bwa pandas snpeff r-ggplot2 r-rafalib
%runscript
exec /bin/bash
Collection
- Name: bsiranosian/bens_1337_workflows
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/bsiranosian-bens_1337_workflows-snippy |
collection name | bsiranosian/bens_1337_workflows |
branch | master |
tag | snippy |
commit | c882e6fbd9df8d0a1cab243d6c00960b24fc12a4 |
version (container hash) | 77512c05d6cf7f9242e6649a270d4aeb |
build date | 2020-03-25T19:41:44.928Z |
size (MB) | 4520 |
size (bytes) | 2086789151 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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