Aexbrayat/snakescif:latest
$ singularity pull shub://Aexbrayat/snakescif:latest
Singularity Recipe
Bootstrap: docker
From: continuumio/miniconda3:4.3.27
# sudo singularity build snakemake Singularity
%files
snakevir.scif
Snakefile
config.yaml
cluster.json
%environment
PATH=/opt/conda/bin:$PATH
export PATH
%post
mkdir -p /samples /data /snakevirome
apt-get update && apt-get -y install build-essential valgrind time python-numpy python-dev python-qt4 python-lxml python-six
/opt/conda/bin/conda config --add channels defaults
/opt/conda/bin/conda config --add channels conda-forge
/opt/conda/bin/conda config --add channels bioconda
# Install scif and scif-apps
/opt/conda/bin/pip install scif
/opt/conda/bin/scif install /snakevir.scif
# Install snakemake
/opt/conda/bin/pip install snakemake==5.7.4
/opt/conda/bin/pip install docutils==0.14
/opt/conda/bin/pip install biopython
/opt/conda/bin/pip install pandas
/opt/conda/bin/python - <<EOF
from ete3 import NCBITaxa
ncbi = NCBITaxa()
ncbi.update_taxonomy_database()
%runscript
PATH=/opt/conda/bin:$PATH
export PATH
exec scif "$@"
Collection
- Name: Aexbrayat/snakescif
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/Aexbrayat-snakescif-latest |
collection name | Aexbrayat/snakescif |
branch | master |
tag | latest |
commit | 7c2349ae5306744417cb6464008f29f804156588 |
version (container hash) | 05ffe76063511d067feea53a1cffb154 |
build date | 2020-10-24T18:16:22.555Z |
size (MB) | 6304.0 |
size (bytes) | 2833498143 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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