Amjadhpc/HAP:latest
$ singularity pull shub://Amjadhpc/HAP:latest
Singularity Recipe
BootStrap: yum
OSVersion : 7
MirrorURL: http://mirror.centos.org/centos-%{OSVERSION}/%{OSVERSION}/os/$basearch/
Include : yum tar git
%help
This is singularity 2.6.0 image for hap build for centos 7 system.
%runscript
exec echo "The runscript is the containers default runtime command!"
%setup
%files
%environment
%labels
AUTHOR Amjad Syed
Email amjadcsu@gmail.com
%post
yum -y install rpm tar gzip autoconf git cmake gcc gcc-c++ boost make python wget python-setuptools python-devel zlib-devel zlib bzip2 bzip2-devel libstdc++ libstdc++-devel libstdc++-static
mkdir -p /opt/sourcecode
echo $SINGULARITY_ROOTFS
echo $PWD
ls -l
cd /
cd /root
wget https://files.pythonhosted.org/packages/e5/8f/3fc66461992dc9e9fcf5e005687d5f676729172dda640df2fd8b597a6da7/pip-9.0.2.tar.gz
tar -zxvf pip-9.0.2.tar.gz
cd pip-9.0.2
python setup.py build
python setup.py install
cd /root
pip install argparse
pip install numpy
pip install scipy
pip install pandas
pip install pysam
pip install bx-python
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/lib64:/usr/lib
git clone https://github.com/sequencing/hap.py
#cd hap.py
mkdir hap.py-build
cd hap.py-build
cmake ../hap.py
make
make install
Collection
- Name: Amjadhpc/HAP
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/Amjadhpc-HAP-latest |
collection name | Amjadhpc/HAP |
branch | master |
tag | latest |
commit | 50bbb4dda196293ee57602e9e2d15abecaa3231f |
version (container hash) | adc87e4fb074c7908f916b86a01e81ab |
build date | 2018-12-04T16:31:44.421Z |
size (MB) | 1972 |
size (bytes) | 760578079 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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