bsiranosian/bin_genomes:checkm
$ singularity pull shub://bsiranosian/bin_genomes:checkm
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 python=2.7 hmmer prodigal pplacer
# checkm install
pip install checkm-genome
mkdir checkm_data
cd checkm_data
wget https://data.ace.uq.edu.au/public/CheckM_databases/checkm_data_2015_01_16.tar.gz
tar xvfz checkm_data_2015_01_16.tar.gz
yes "." | checkm data setRoot
%runscript
exec /bin/bash
Collection
- Name: bsiranosian/bin_genomes
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/bsiranosian-bin_genomes-checkm |
collection name | bsiranosian/bin_genomes |
branch | master |
tag | checkm |
commit | dd352b12899baa79aed36c8416f03ea94d23ef89 |
version (container hash) | aee385ce96858a2fd90a8d561db80d2e |
build date | 2021-04-14T23:42:59.510Z |
size (MB) | 2872 |
size (bytes) | 1086980127 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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