Software
[Tutorial] Installing Pymol on Mac OS.

Previously, we provided a tutorial for Pymol installation on Ubuntu. In this article, we are going to install Pymol on Mac OS.
Preparing system
Let’s update and upgrade our system first.
$ sudo apt-get update
$ sudo apt-get upgrade
Installing prerequisites
If you are going to use MacPorts for the installation, then you will have to install the prerequisites as shown below.
% sudo port install tcl-corefoundation
% sudo port install tk-quartz
Installing Pymol
Using Homebrew
% brew install brewsci/bio/pymol
Using MacPorts
% sudo port install pymol
After a successful installation, type % pymol
in the terminal to run.
References
- The PyMOL Molecular Graphics System, Version 1.2r3pre, Schrödinger, LLC.
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Secondary structure
How to run do_dssp command (mkdssp) in Gromacs 2022?

In the latest version of GROMACS (2022) [1], there are some issues regarding the gmx do_dssp command. Apparently, this command either does not run displaying a fatal error, or if it runs then it does not read any frame from MD simulation files. In this article, we are going to run the same command for GROMACS 2022. (more…)
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