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Commit 8488af89 authored by Marty Kandes's avatar Marty Kandes
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naked-singularity-v0.3.0 :: added biopython for python and python3 to

keras-tensorflow-cpu.def and keras-tensorflow-gpu.def on comet
parent b008aeca
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......@@ -29,8 +29,8 @@ AUTHOR
VERSION
0.2.9
0.3.0
LAST UPDATED
Wednesday, April 10th, 2018
Wednesday, April 18th, 2018
......@@ -12,7 +12,7 @@ OSVersion: xenial
SYSTEM_NAME comet
SYSTEM_SINGULARITY_VERSION 2.3.2
SYSTEM_URL http://www.sdsc.edu/support/user_guides/comet.html
LAST_UPDATED 20180404
LAST_UPDATED 20180418
%setup
......@@ -203,6 +203,10 @@ OSVersion: xenial
apt-get -y install libopencv-dev
apt-get -y install python-opencv
# Install common python packages for the biological and biomedical sciences
apt-get -y install python-biopython
apt-get -y install python-biopython-sql
# Install common python3 packages for data science and machine learning applications
apt-get -y install python3-scipy
apt-get -y install python3-pandas
......@@ -214,15 +218,20 @@ OSVersion: xenial
apt-get -y install python3-sklearn
apt-get -y install python3-nltk
# Install common python3 packages for the biological and biomedical sciences
apt-get -y install python3-biopython
apt-get -y install python3-biopython-sql
# Install Keras dependencies for python(2) and python3
apt-get -y install python-yaml
apt-get -y install python3-yaml
# Download, build, and install Keras
cd /opt
# Download, build, and install Keras
wget https://github.com/keras-team/keras/archive/2.1.5.tar.gz
tar -xzvf 2.1.5.tar.gz
cd keras-2.1.5
cd /opt/keras-2.1.5
python setup.py install
python3 setup.py install
......
......@@ -12,7 +12,7 @@ OSVersion: xenial
SYSTEM_NAME comet
SYSTEM_SINGULARITY_VERSION 2.3.2
SYSTEM_URL http://www.sdsc.edu/support/user_guides/comet.html
LAST_UPDATED 20180405
LAST_UPDATED 20180418
%setup
......@@ -382,6 +382,10 @@ OSVersion: xenial
apt-get -y install libopencv-dev
apt-get -y install python-opencv
# Install common python packages for the biological and biomedical sciences
apt-get -y install python-biopython
apt-get -y install python-biopython-sql
# Install common python3 packages for data science and machine learning applications
apt-get -y install python3-scipy
apt-get -y install python3-pandas
......@@ -393,12 +397,17 @@ OSVersion: xenial
apt-get -y install python3-sklearn
apt-get -y install python3-nltk
# Install common python3 packages for the biological and biomedical sciences
apt-get -y install python3-biopython
apt-get -y install python3-biopython-sql
# Install Keras dependencies for python(2) and python3
apt-get -y install python-yaml
apt-get -y install python3-yaml
# Download, build, and install Keras
cd /opt
# Download, build, and install Keras
wget https://github.com/keras-team/keras/archive/2.1.5.tar.gz
tar -xzvf 2.1.5.tar.gz
cd /opt/keras-2.1.5
......
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