Characterisation-Virtual-Laboratory/CharacterisationVL-Software:cryolo_v1_0_4

$ singularity pull shub://Characterisation-Virtual-Laboratory/CharacterisationVL-Software:cryolo_v1_0_4

Singularity Recipe

BootStrap: debootstrap
OSVersion: xenial
MirrorURL: http://au.archive.ubuntu.com/ubuntu/

%labels
MAINTAINER lance.wilson@monash.edu
HARDWARE gpu


%runscript
    echo "This is what happens when you run the container..."


%post
    echo "*********************************************************"
    echo "Setup and display environment"
    echo "*********************************************************"
    export LC_ALL=en_AU.UTF-8
    export LANGUAGE=en_AU.UTF-8
    export DEBIAN_FRONTEND=noninteractive
    echo $LC_ALL
    echo $LANGUAGE
    echo $DEBIAN_FRONTEND
    echo "*********************************************************"
    echo "Install repositories"
    echo "*********************************************************"
    sed -i 's/main/main restricted universe multiverse/g' /etc/apt/sources.list
    echo "deb http://developer.download.nvidia.com/compute/cuda/repos/ubuntu1604/x86_64 /" > /etc/apt/sources.list.d/cuda.list
    apt-key adv --fetch-keys http://developer.download.nvidia.com/compute/cuda/repos/ubuntu1604/x86_64/7fa2af80.pub
    echo "*********************************************************"
    echo "Update repositories and install desktop"
    echo "*********************************************************"
    apt update
    apt upgrade -y
    apt install -y locales
    locale-gen en_AU.UTF-8
    apt install -y wget ubuntu-desktop vim software-properties-common git cmake 
    echo "*********************************************************"
    echo "Installing CUDA"
    echo "*********************************************************"
    apt install -y cuda-9-0
    echo "*********************************************************"
    echo "Installing python dependencies"
    echo "*********************************************************"
    apt install -y python-pip python-pyqt5 pyqt5-dev python-tk
    echo "*********************************************************"
    echo "Installing software"
    echo "*********************************************************"
    wget ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_0_4/cryolo-1.0.4.tar.gz
    wget ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_BM_V1_0_2/cryoloBM-1.0.2.tar.gz
    wget ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_0_0/gmodel_cryolo_20180621_0734_loss_0102.h5
    pip install numpy
    pip install cryolo-1.0.4.tar.gz
    pip install cryoloBM-1.0.2.tar.gz

Collection

• Name: Characterisation-Virtual-Laboratory/CharacterisationVL-Software
• License: GNU General Public License v3.0

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