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


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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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