anaconda

CIMA's ciomputational resources have conda installed. This facilitates the individualized management of, for example, python

Install

In case you want to install (in any other machine!)

1. Getting to the downloads folder

$ mkdir Downloads
$ cd Downloads

1. Getting the installer for python 2.7

wget https://repo.continuum.io/archive/Anaconda2-4.4.0-Linux-x86_64.sh

1. Execution of the installer

$ bash Anaconda2-4.4.0-Linux-x86_64.sh
(...)
install path: /home/lluis.fita/bin/anaconda2
(...)
Do you wish the installer to prepend the Anaconda2 install location
to PATH in your /home/lluis.fita/.bashrc ? [yes|no]
>>> no
You may wish to edit your .bashrc or prepend the Anaconda2 install location:
$ export PATH=/home/lluis.fita/bin/anaconda2/bin:$PATH
Thank you for installing Anaconda2!
Share your notebooks and packages on Anaconda Cloud!

1. Anaconda’s python as:

$ /home/lluis.fita/bin/anaconda2/bin/python
Python 2.7.13 |Anaconda 4.4.0 (64-bit)| (default, Dec 20 2016, 23:09:15)
[GCC 4.4.7 20120313 (Red Hat 4.4.7-1)4] on linux2
Type "help", "copyright", "credits" or "license" for more information.
Anaconda is brought to you by Continuum Analytics.
Please check out: http://continuum.io/thanks and https://anaconda.org

Installing packages

Steps to follow to install a package

1. Let’s install netcdf4

$ ${HOME}/bin/anaconda2/bin/conda install netcdf4
Fetching package metadata .........
Solving package specifications: .
Package plan for installation in environment /home/lluis.fita/bin/anaconda2:
The following NEW packages will be INSTALLED:
hdf4: 4.2.12-1
libnetcdf: 4.4.1-1
netcdf4: 1.2.4-np112py27_0
The following packages will be UPDATED:
anaconda: 4.4.0-np112py27_0 –> custom-py27_0
conda: 4.3.21-py27_0 –> 4.3.22-py27_0
The following packages will be DOWNGRADED:
curl: 7.52.1-0 –> 7.49.0-1
pycurl: 7.43.0-py27_2 –> 7.43.0-py27_0
Proceed ([y]/n)? y

cration of an environtment

A python environtment is useful to have set-up an specific set of packages to be used for python. Folowing instructions from conda EnvironmentCreation

1. Creation of the environemnt called ‘lluis’ with ptyhon 2.7 version of codes

conda create --name lluis python=2.7

1. To activate the environment

$ source ~/bin/anaconda2/bin/activate lluis
(lluis) $

1. Knowing packages of the environtment:

$ conda list -n lluis
# packages in environment at /home/lluis.fita/datosskogul/minconda3/envs/lluis:
#
ca-certificates           2017.7.27.1                   0    conda-forge
certifi                   2017.7.27.1              py27_0    conda-forge
ncurses                   5.9                          10    conda-forge
openssl                   1.0.2l                        0    conda-forge
pip                       9.0.1                    py27_0    conda-forge
python                    2.7.14                        0    conda-forge
readline                  6.2                           0    conda-forge
setuptools                36.6.0                   py27_1    conda-forge
sqlite                    3.13.0                        1    conda-forge
tk                        8.5.19                        2    conda-forge
wheel                     0.30.0                     py_1    conda-forge
zlib                      1.2.8                         3    conda-forge

1. To install a pakage (assuming pip is already in the environtment!):

$ pip install numpy

1. Deactivate environtment:

(lluis) $ source ~/bin/anaconda2/bin/deactivate
$