Software Installations on Windows

This page contains instructions for installing Anaconda/Bioconda on Windows, Ubuntu on Windows, Mac, a Lawrence account, and Jetstream

Warning: this site is under construction.  The information may be incomplete.
Anaconda on Windows
To download Anaconda, go to the distribution website: https://www.anaconda.com/distribution/.
Scroll down to the download section.  Select "Windows", then select "Download".
Follow the installation wizard.
The Users Guide should pop up (this webpage).
To open Anaconda, go to the start menu and expand the Anaconda3 folder.
Select "Anaconda Navigator".
Anaconda on Ubuntu on Windows
Installing Ubuntu on Windows
Ubuntu for Windows can be downloaded from the Microsoft store.  
Search for "ubuntu".
Select the app.
Click "Get", then "Install".
Search for "Ubuntu" and select the app.
The window will look like this:
​
Installing Anaconda on Ubuntu on Windows
First, open Ubuntu for Windows (see above) and check to ensure that conda is not already installed. 
[email protected]:~$ which conda
If it has been, a file path will show up under the command, if not, the next line will be a prompt.
Download the installer
[email protected]:~$ wget --quiet --no-check-certificate https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64
.sh
[email protected]:~$ ls
Miniconda3-latest-Linux-x86_64.sh
​
Run the installer
[email protected]:~$ bash Miniconda3-latest-Linux-x86_64.sh -b -p $HOME/anaconda3
PREFIX=/home/adison/anaconda3
Unpacking payload ...
…
  zstd               pkgs/main/linux-64::zstd-1.3.7-h0b5b093_0
…
Preparing transaction: done
Executing transaction: done
installation finished.
…
​
[email protected]:~$
Run an update:
[email protected]:~$ $HOME/anaconda3/bin/conda update conda -y
Collecting package metadata (current_repodata.json): done
Solving environment: done
 ...
​
Executing transaction: done
[email protected]:~$
Then install Anaconda
[email protected]:~$ $HOME/anaconda3/bin/conda install anaconda -y
Collecting package metadata (current_repodata.json): done
Solving environment: done
 
## Package Plan ##
...
Verifying transaction: done
Executing transaction: / b'Enabling notebook extension jupyter-js-widgets/extension...\n      - Validating: \x1b[32mOK\x1b[0m\n'                                                                                                              done
[email protected]:~$
Initialize
[email protected]:~$ $HOME/anaconda3/bin/conda init
no change     /home/user/anaconda3/condabin/conda
...
no change     /home/user/anaconda3/etc/profile.d/conda.csh
modified      /home/user/.bashrc
 
==> For changes to take effect, close and re-open your current shell. <==
 
[email protected]:~$
Close and re-open your Ubuntu command line.
Bioconda on Windows on Ubuntu
After running the installation of Anaconda on Ubuntu on Windows (see above), add bioconda:
[email protected]:~$ conda config --add channels bioconda
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