Singularity container
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I wrote the following singularity container
BootStrap: docker
From: debian:stretch-backports
%help
A container with 3d-dna
%post
apt-get update && apt-get -y upgrade
apt-get -y install
build-essential
wget
bzip2
ca-certificates
libglib2.0-0
libxext6
libsm6
libxrender1
git
rm -rf /var/lib/apt/lists/*
apt-get clean
# download and install Miniconda
echo 'export PATH=/opt/conda/bin:$PATH' > /etc/profile.d/conda.sh
wget -c https://repo.continuum.io/miniconda/Miniconda2-latest-Linux-x86_64.sh
/bin/bash Miniconda2-latest-Linux-x86_64.sh -b -p /opt/conda
rm -rf Miniconda2-latest-Linux-x86_64.sh
# add bioconda channels
conda config --add channels defaults
conda config --add channels conda-forge
conda config --add channels bioconda
conda update conda
# install 3d-dna dependecies
conda install lastz=1.0.4
conda install openjdk=8.0.152
conda install gawk=4.2.1
conda install coreutils=8.30
conda install parallel=20180522
conda install python=2.7
conda install numpy=1.15.1
conda install scipy=1.1.0
conda install matplotlib=2.2.3
# install 3d-dna
git clone https://github.com/theaidenlab/3d-dna.git
%environment
PATH=/opt/conda/bin:$PATH
Could anyone please show me how to build and access the scripts inside the 3d-dna folder?
container
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up vote
0
down vote
favorite
I wrote the following singularity container
BootStrap: docker
From: debian:stretch-backports
%help
A container with 3d-dna
%post
apt-get update && apt-get -y upgrade
apt-get -y install
build-essential
wget
bzip2
ca-certificates
libglib2.0-0
libxext6
libsm6
libxrender1
git
rm -rf /var/lib/apt/lists/*
apt-get clean
# download and install Miniconda
echo 'export PATH=/opt/conda/bin:$PATH' > /etc/profile.d/conda.sh
wget -c https://repo.continuum.io/miniconda/Miniconda2-latest-Linux-x86_64.sh
/bin/bash Miniconda2-latest-Linux-x86_64.sh -b -p /opt/conda
rm -rf Miniconda2-latest-Linux-x86_64.sh
# add bioconda channels
conda config --add channels defaults
conda config --add channels conda-forge
conda config --add channels bioconda
conda update conda
# install 3d-dna dependecies
conda install lastz=1.0.4
conda install openjdk=8.0.152
conda install gawk=4.2.1
conda install coreutils=8.30
conda install parallel=20180522
conda install python=2.7
conda install numpy=1.15.1
conda install scipy=1.1.0
conda install matplotlib=2.2.3
# install 3d-dna
git clone https://github.com/theaidenlab/3d-dna.git
%environment
PATH=/opt/conda/bin:$PATH
Could anyone please show me how to build and access the scripts inside the 3d-dna folder?
container
add a comment |Â
up vote
0
down vote
favorite
up vote
0
down vote
favorite
I wrote the following singularity container
BootStrap: docker
From: debian:stretch-backports
%help
A container with 3d-dna
%post
apt-get update && apt-get -y upgrade
apt-get -y install
build-essential
wget
bzip2
ca-certificates
libglib2.0-0
libxext6
libsm6
libxrender1
git
rm -rf /var/lib/apt/lists/*
apt-get clean
# download and install Miniconda
echo 'export PATH=/opt/conda/bin:$PATH' > /etc/profile.d/conda.sh
wget -c https://repo.continuum.io/miniconda/Miniconda2-latest-Linux-x86_64.sh
/bin/bash Miniconda2-latest-Linux-x86_64.sh -b -p /opt/conda
rm -rf Miniconda2-latest-Linux-x86_64.sh
# add bioconda channels
conda config --add channels defaults
conda config --add channels conda-forge
conda config --add channels bioconda
conda update conda
# install 3d-dna dependecies
conda install lastz=1.0.4
conda install openjdk=8.0.152
conda install gawk=4.2.1
conda install coreutils=8.30
conda install parallel=20180522
conda install python=2.7
conda install numpy=1.15.1
conda install scipy=1.1.0
conda install matplotlib=2.2.3
# install 3d-dna
git clone https://github.com/theaidenlab/3d-dna.git
%environment
PATH=/opt/conda/bin:$PATH
Could anyone please show me how to build and access the scripts inside the 3d-dna folder?
container
I wrote the following singularity container
BootStrap: docker
From: debian:stretch-backports
%help
A container with 3d-dna
%post
apt-get update && apt-get -y upgrade
apt-get -y install
build-essential
wget
bzip2
ca-certificates
libglib2.0-0
libxext6
libsm6
libxrender1
git
rm -rf /var/lib/apt/lists/*
apt-get clean
# download and install Miniconda
echo 'export PATH=/opt/conda/bin:$PATH' > /etc/profile.d/conda.sh
wget -c https://repo.continuum.io/miniconda/Miniconda2-latest-Linux-x86_64.sh
/bin/bash Miniconda2-latest-Linux-x86_64.sh -b -p /opt/conda
rm -rf Miniconda2-latest-Linux-x86_64.sh
# add bioconda channels
conda config --add channels defaults
conda config --add channels conda-forge
conda config --add channels bioconda
conda update conda
# install 3d-dna dependecies
conda install lastz=1.0.4
conda install openjdk=8.0.152
conda install gawk=4.2.1
conda install coreutils=8.30
conda install parallel=20180522
conda install python=2.7
conda install numpy=1.15.1
conda install scipy=1.1.0
conda install matplotlib=2.2.3
# install 3d-dna
git clone https://github.com/theaidenlab/3d-dna.git
%environment
PATH=/opt/conda/bin:$PATH
Could anyone please show me how to build and access the scripts inside the 3d-dna folder?
container
container
edited Sep 17 at 1:46
Rui F Ribeiro
36.8k1273117
36.8k1273117
asked Sep 17 at 1:46
user3523406
477
477
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