Connect with us

Bioinformatics Programming

Installing Pycharm on Ubuntu (Linux)

Published

on

Installing pycharm on Ubuntu

Pycharm [1] is an integrated development environment (IDE) for developers. It combines Python developer tools and provides an easy graphical user interface. In this article, we are going to install Pycharm on Ubuntu.

Preparing system

Open a terminal by pressing Ctrl+Alt+T. Update and upgrade your system using the following commands:

$ sudo apt-get update

$ sudo apt-get upgrade

Standalone Installation

Downloading Pycharm

Change to the directory where you want to download the software. Let’s say, Downloads. Download the latest release of SAMtools from here or use the following command:

$ cd Downloads/

$ wget https://download.jetbrains.com/python/pycharm-community-2021.1.1.tar.gz

It will take a few moments to download.

Installing Pycharm

We are in the same directory (i.e., Downloads). Now extract the downloaded package using the following commands.

$ tar xvzf pycharm-community-2021.1.1.tar.gz

Now, change to the bin directory present inside the newly-created directory (pycharm-community-2021.1.1).

$ cd pycharm-community-2021.1.1/bin/

Now, execute the pycharm.sh script using the following commands:

$ chmod +x pycharm.sh

$ ./pycharm.sh

It will take a few minutes to process. Later, it will prompt you to agree to the terms & conditions, just check the box and click ‘Continue’. After that, it will ask for your consent to share your data, you can deny it by clicking on ‘Don’t send’. It will open a new window asking you to either create a new project or open one. Now, you can easily use Pycharm on Ubuntu.


Easy Installation

You can also install Pycharm from Ubuntu Software. Follow these steps:

  • Open ‘Ubuntu Software’.
  • Type Pycharm in the search bar.
  • It will display a few options.
  • Select ‘Pycharm CE‘ (i.e., Pycharm Classic Edition).
  • Let it download.

Now, you can easily search for ‘Pycharm‘ like any other Linux application.


References

  1. https://www.jetbrains.com/pycharm/

Tariq is founder of Bioinformatics Review and CEO at IQL Technologies. His areas of expertise include algorithm design, phylogenetics, MicroArray, Plant Systematics, and genome data analysis. If you have questions, reach out to him via his homepage.

Bioinformatics Programming

How to make swarm boxplot?

Published

on

How to make swarm boxplot?

With the new year, we are going to start with a very simple yet complicated topic (for beginners) in bioinformatics. In this tutorial, we provide a simple code to plot swarm boxplot using matplotlib and seaborn. (more…)

Continue Reading

Bioinformatics Programming

How to obtain ligand structures in PDB format from PDB ligand IDs?

Published

on

How to obtain ligand structures in PDB format from PDB ligand IDs?

Previously, we provided a similar script to download ligand SMILES from PDB ligand IDs. In this article, we are downloading PDB ligand structures from their corresponding IDs. (more…)

Continue Reading

Bioinformatics Programming

How to obtain SMILES of ligands using PDB ligand IDs?

Published

on

How to obtain SMILES of ligands using PDB ligand IDs?

Fetching SMILE strings for a given number of SDF files of chemical compounds is not such a trivial task. We can quickly obtain them using RDKit or OpenBabel. But what if you don’t have SDF files of ligands in the first place? All you have is Ligand IDs from PDB. If they are a few then you can think of downloading SDF files manually but still, it seems time-consuming, especially when you have multiple compounds to work with. Therefore, we provide a Python script that will read all Ligand IDs and fetch their SDF files, and will finally convert them into SMILE strings. (more…)

Continue Reading

LATEST ISSUE

ADVERT