Dill-PICL/GOMAP-base:latest
$ singularity pull shub://Dill-PICL/GOMAP-base:latest
Singularity Recipe
Bootstrap: docker
From: ubuntu:bionic
%labels
BASE_OWNER Wimalanathan Kokulapalan
BASE_MAINTAINER Wimalanathan Kokulapalan
BASE_VERSION 1.1.1
%environment
export IRODS_HOST="data.cyverse.org"
export IRODS_PORT="1247"
export IRODS_USER_NAME="anonymous"
export IRODS_ZONE_NAME="iplant"
%post
export LC_ALL=C
export DEBIAN_FRONTEND=noninteractive
export TZ=America/Chicago
echo "Running post.sh"
apt-get -q -y update
apt-get -yq install bsdutils lsb-base passwd perl psmisc debconf libc6 libevent-core-2.1-6 libgcc1 liblz4-1 libstdc++6 zlib1g gfortran rsync build-essential less vim wget python-pip libfuse2 r-base openjdk-8-jdk libidn11-dev libssl1.0-dev libssl1.0.0 git ncbi-blast+ octave octave-dataframe sqlite3 libsqlite3-dev python3-pip
update-java-alternatives -s java-1.8.0-openjdk-amd64
R -e 'install.packages(c("data.table","futile.logger","ontologyIndex","yaml"), repos="https://mirror.las.iastate.edu/CRAN/", INSTALL_opts="--no-html")'
pip install numpy==1.14.5
pip install pyrsistent==0.14.0
pip install scipy==1.1.0
pip install jsonmerge==1.5.1
pip install jsonschema==2.6.0
pip install lxml==4.2.1
pip install PyYAML==3.12
pip install yamldirs==1.1.3
pip install pyrocopy==0.8.0
pip install requests==2.19.1
pip install requests-toolbelt==0.8.0
pip install numpydoc==0.8.0
pip install biopython==1.70
pip install joblib==0.12.2
pip install natsort==5.3.3
wget "https://files.renci.org/pub/irods/releases/4.1.12/ubuntu14/irods-icommands-4.1.12-ubuntu14-x86_64.deb"
dpkg -i irods-icommands-4.1.12-ubuntu14-x86_64.deb
ls
wget -O azcopy_v10.tar.gz https://aka.ms/downloadazcopy-v10-linux && \
tar -xf azcopy_v10.tar.gz --strip-components=1 && \
cp azcopy /usr/bin/ && \
chmod 755 /usr/bin/azcopy
echo "=============================================="
echo "Completed Post"
echo "=============================================="
%startscript
chmod 777 /tmp
%runscript
cd /opt/GOMAP/
./gomap.py "$@"
Collection
- Name: Dill-PICL/GOMAP-base
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/Dill-PICL-GOMAP-base-latest |
collection name | Dill-PICL/GOMAP-base |
branch | master |
tag | latest |
commit | 6092de4e799c67c49787c0780f158a827acb1084 |
version (container hash) | 28a6d1a857a66ff73aba068975ee84fd488b162231feab735b70eb563e8c7354 |
build date | 2020-12-26T17:32:07.543Z |
size (MB) | 833.1640625 |
size (bytes) | 873635840 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
Feedback
Was this page helpful?
Glad to hear it! Please tell us how we can improve.
Sorry to hear that. Please tell us how we can improve.