Marcelloo: Created page with " To use numpy library and other common Python libraries install anaconda into your home directory:

 wget http://repo.continuum.io/miniconda/Miniconda-latest-Linux-x86_64..."

2018-09-11T08:49:06Z

Created page with " To use numpy library and other common Python libraries install anaconda into your home directory: <pre> wget http://repo.continuum.io/miniconda/Miniconda-latest-Linux-x86_64..."

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To use numpy library and other common Python libraries install anaconda into your home directory:

<pre>
wget http://repo.continuum.io/miniconda/Miniconda-latest-Linux-x86_64.sh -O miniconda.sh
chmod +x miniconda.sh
./miniconda.sh -b
export PATH=~/miniconda/bin:$PATH
conda update --yes conda
conda create --yes -n dev pip scipy numpy matplotlib hdf5 h5py ipython mpi4py jupyter
</pre>

Then add this line into your ~/.bashrc file:

<pre>
PATH=$HOME/miniconda/bin:$PATH
</pre>

The following line activates the virtual environment named "dev",
which effectively moves you to a new folder with its own binary files, compilers, etc.
The line needs to be called before running a script using the virtual environment.
The line can be put either into you .bashrc file or into the (.sge) submission script.

<pre>
source activate dev
</pre>

Now, virtual environment contains its own compilers. If you need to run a Python script in parallel,
all needs to be compiled using these compilers, unless you manage to redirect to intel compilers or mkl libraries on orlando. An example of a software which needs to be compiled in this way is the molecular dynamics simulation software LAMMPS,
which can be called from Python and run in parallel.

User:Marcelloo - Revision history

Marcelloo: Created page with " To use numpy library and other common Python libraries install anaconda into your home directory:
wget http://repo.continuum.io/miniconda/Miniconda-latest-Linux-x86_64..."