Installing Anaconda in GNU/Linux Mint

Download Miniconda

Download Miniconda for Python version 3 (we would be able to run both Python major versions). The URL for Miniconda download is https://docs.conda.io/en/latest/miniconda.html where you should choose the option for 64-bit Linux.

curro@mint2modesto:~$ cd Downloads
curro@mint2modesto:~/Downloads$ wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh
--2020-03-24 19:13:28--  https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh
Resolving repo.anaconda.com (repo.anaconda.com)... 104.16.130.3, 104.16.131.3, 2606:4700::6810:8303, ...
Connecting to repo.anaconda.com (repo.anaconda.com)|104.16.130.3|:443... connected.
HTTP request sent, awaiting response... 200 OK
Length: 85055499 (81M) [application/x-sh]
Saving to: ‘Miniconda3-latest-Linux-x86_64.sh’

Run the installer

curro@mint2modesto:~/Downloads$ bash Miniconda3-latest-Linux-x86_64.sh 

Welcome to Miniconda3 4.8.2

In order to continue the installation process, please review the license
agreement.
Please, press ENTER to continue
>>> 

Accept the default installation directory /home/curro/Miniconda3 and let the installer initialize Miniconda3.

Open a new terminal and it will have the base environment activated. Update conda in this new terminal

(base) curro@mint2modesto:~$ conda update conda
Collecting package metadata (current_repodata.json): done
Solving environment: done

## Package Plan ##

  environment location: /home/curro/miniconda3

  added / updated specs:
    - conda


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    certifi-2019.11.28         |           py37_1         156 KB
    conda-4.8.3                |           py37_0         2.8 MB
    idna-2.9                   |             py_1          49 KB
    openssl-1.1.1e             |       h7b6447c_0         2.5 MB
    pycparser-2.20             |             py_0          92 KB
    requests-2.23.0            |           py37_0          92 KB
    setuptools-46.1.1          |           py37_0         512 KB
    tqdm-4.43.0                |             py_0          56 KB
    ------------------------------------------------------------
                                           Total:         6.3 MB

The following packages will be UPDATED:

  certifi                                 2019.11.28-py37_0 --> 2019.11.28-py37_1
  conda                                        4.8.2-py37_0 --> 4.8.3-py37_0
  idna                  pkgs/main/linux-64::idna-2.8-py37_0 --> pkgs/main/noarch::idna-2.9-py_1
  openssl                                 1.1.1d-h7b6447c_4 --> 1.1.1e-h7b6447c_0
  pycparser          pkgs/main/linux-64::pycparser-2.19-py~ --> pkgs/main/noarch::pycparser-2.20-py_0
  requests                                    2.22.0-py37_1 --> 2.23.0-py37_0
  setuptools                                  45.2.0-py37_0 --> 46.1.1-py37_0
  tqdm                                          4.42.1-py_0 --> 4.43.0-py_0


Proceed ([y]/n)? 


Downloading and Extracting Packages
openssl-1.1.1e       | 2.5 MB    | ################################################################################################################### | 100% 
requests-2.23.0      | 92 KB     | ################################################################################################################### | 100% 
conda-4.8.3          | 2.8 MB    | ################################################################################################################### | 100% 
pycparser-2.20       | 92 KB     | ################################################################################################################### | 100% 
idna-2.9             | 49 KB     | ################################################################################################################### | 100% 
setuptools-46.1.1    | 512 KB    | ################################################################################################################### | 100% 
certifi-2019.11.28   | 156 KB    | ################################################################################################################### | 100% 
tqdm-4.43.0          | 56 KB     | ################################################################################################################### | 100% 
Preparing transaction: done
Verifying transaction: done
Executing transaction: done

Create Python 2 and Python 3 environments.

Now we proceed to create a Python 2 and a Python 3 environment.

(base) curro@mint2modesto:~$ conda create --name py3 python=3
Collecting package metadata (current_repodata.json): done
Solving environment: done

## Package Plan ##

  environment location: /home/curro/miniconda3/envs/py3

  added / updated specs:
    - python=3


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    certifi-2019.11.28         |           py38_1         157 KB
    pip-20.0.2                 |           py38_1         1.7 MB
    python-3.8.1               |       h0371630_1        49.5 MB
    setuptools-46.1.1          |           py38_0         513 KB
    wheel-0.34.2               |           py38_0          51 KB
    ------------------------------------------------------------
                                           Total:        51.8 MB

The following NEW packages will be INSTALLED:

  _libgcc_mutex      pkgs/main/linux-64::_libgcc_mutex-0.1-main
  ca-certificates    pkgs/main/linux-64::ca-certificates-2020.1.1-0
  certifi            pkgs/main/linux-64::certifi-2019.11.28-py38_1
  ld_impl_linux-64   pkgs/main/linux-64::ld_impl_linux-64-2.33.1-h53a641e_7
  libedit            pkgs/main/linux-64::libedit-3.1.20181209-hc058e9b_0
  libffi             pkgs/main/linux-64::libffi-3.2.1-hd88cf55_4
  libgcc-ng          pkgs/main/linux-64::libgcc-ng-9.1.0-hdf63c60_0
  libstdcxx-ng       pkgs/main/linux-64::libstdcxx-ng-9.1.0-hdf63c60_0
  ncurses            pkgs/main/linux-64::ncurses-6.2-he6710b0_0
  openssl            pkgs/main/linux-64::openssl-1.1.1e-h7b6447c_0
  pip                pkgs/main/linux-64::pip-20.0.2-py38_1
  python             pkgs/main/linux-64::python-3.8.1-h0371630_1
  readline           pkgs/main/linux-64::readline-7.0-h7b6447c_5
  setuptools         pkgs/main/linux-64::setuptools-46.1.1-py38_0
  sqlite             pkgs/main/linux-64::sqlite-3.31.1-h7b6447c_0
  tk                 pkgs/main/linux-64::tk-8.6.8-hbc83047_0
  wheel              pkgs/main/linux-64::wheel-0.34.2-py38_0
  xz                 pkgs/main/linux-64::xz-5.2.4-h14c3975_4
  zlib               pkgs/main/linux-64::zlib-1.2.11-h7b6447c_3


Proceed ([y]/n)? 


Downloading and Extracting Packages
python-3.8.1         | 49.5 MB   | ################################################################################################################### | 100% 
setuptools-46.1.1    | 513 KB    | ################################################################################################################### | 100% 
wheel-0.34.2         | 51 KB     | ################################################################################################################### | 100% 
certifi-2019.11.28   | 157 KB    | ################################################################################################################### | 100% 
pip-20.0.2           | 1.7 MB    | ################################################################################################################### | 100% 
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
#
# To activate this environment, use
#
#     $ conda activate py3
#
# To deactivate an active environment, use
#
#     $ conda deactivate

The Python 2 environment is created in the same way.

Installing software in a given environment

(base) curro@mint2modesto:~$ conda activate py3
(py3) curro@mint2modesto:~$ conda install ipython numpy matplotlib pandas jupyter
Collecting package metadata (current_repodata.json): done
Solving environment: done

## Package Plan ##

  environment location: /home/curro/miniconda3/envs/py3

  added / updated specs:
    - ipython
    - jupyter
    - matplotlib
    - numpy
    - pandas


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    attrs-19.3.0               |             py_0          39 KB
    backcall-0.1.0             |           py38_0          21 KB
.
.
.
y
libgfortran-ng-7.3.0 | 1006 KB   | ################################################################################################################### | 100% 
gmp-6.1.2            | 514 KB    | ################################################################################################################### | 100% 
Preparing transaction: done
Verifying transaction: done
Executing transaction: done

Your first jupyter notebook

You can launch a notebook with the command

(py3) curro@mint2modesto:~$ jupyter notebook
[I 19:43:36.145 NotebookApp] Writing notebook server cookie secret to /home/curro/.local/share/jupyter/runtime/notebook_cookie_secret
[I 19:43:37.193 NotebookApp] Serving notebooks from local directory: /home/curro
[I 19:43:37.194 NotebookApp] The Jupyter Notebook is running at:
[I 19:43:37.195 NotebookApp] http://localhost:8888/?token=42d493626e94c6f5c1ae2d7cdcd300075b584cbe20b62f72
[I 19:43:37.196 NotebookApp]  or http://127.0.0.1:8888/?token=42d493626e94c6f5c1ae2d7cdcd300075b584cbe20b62f72
[I 19:43:37.196 NotebookApp] Use Control-C to stop this server and shut down all kernels (twice to skip confirmation).
[C 19:43:37.283 NotebookApp] 

    To access the notebook, open this file in a browser:
        file:///home/curro/.local/share/jupyter/runtime/nbserver-6617-open.html
    Or copy and paste one of these URLs:
        http://localhost:8888/?token=42d493626e94c6f5c1ae2d7cdcd300075b584cbe20b62f72
     or http://127.0.0.1:8888/?token=42d493626e94c6f5c1ae2d7cdcd300075b584cbe20b62f72
[I 19:43:45.541 NotebookApp] Creating new notebook in 
[I 19:43:45.572 NotebookApp] Writing notebook-signing key to /home/curro/.local/share/jupyter/notebook_secret
[I 19:43:47.232 NotebookApp] Kernel started: 9ab7c66b-92db-4e3e-a137-9900af586546
[I 19:45:47.214 NotebookApp] Saving file at /Untitled.ipynb

By default you can only access notebooks and directories below the folder from which you run the jupyter notebook command, but not files above this folder. You can alter this default behavior and other jupyter default config options editing the application config file as in the following example.

You first generate a config file for your notebooks

(py3) curro@mint2modesto:~$ jupyter notebook --generate-config
Writing default config to: /home/curro/.jupyter/jupyter_notebook_config.py
(py3) curro@mint2modesto:~$ ls ~/.jupyter/
jupyter_notebook_config.py

This file contains the default configuration of jupyter. In order to create a folder and make this directory the default working directory for our notebooks, you can proceed as follows (not recommended unless you are positive all of your notebooks will be contained in this folder and its subfolders

(py3) curro@mint2modesto:~$ mkdir ~/Python

You should then open the jupyter_notebook_config.py file in a text editor and replace the line

#c.NotebookApp.notebook_dir = ''

by

c.NotebookApp.notebook_dir = 'ISP/Python'

Keeping your Anaconda install updated

The most important command in this case is

conda update --all

This will update all packages in the current environment. You can also update a selected package or packages (and dependencies) as follows

conda update numpy scipy

Again this will only affect the current environment.