You should be able to launch PyMOL by running, and it may be convenient to add a symbolic link from this file into your 'bin' directory as 'pymol'.
Create a specific to your installation location. The quartz-wm window manager included with the XQuartz distribution uses the Apple Public Source License Version 2. Configure PyMOL by copying and modifying a 'Rules.make' from the 'setup' directory to reflect your system. The X.Org software components’ licenses are discussed on the
PYMOL TUTORIAL X ANSWERS UPDATE
Please re-install the latest XQuartz X11 release for Leopard after installing a system software update to OS X 10.5.x Leopard.Īn XQuartz installation consists of many individual pieces of software which have various licenses. Because of this, you may experience conflicts after doing a Software Update from Apple. Since the XQuartz X11 package clobbers Apple's X11.app, their software update will clobber the XQuartz X11 package. OS X Software Updates have included some of the work done by the XQuartz project, but for various reasons, Apple cannot ship the latest and greatest version offered by the XQuartz site. Selections can be made more precise or inclusive by combining them with logical. Example: PyMOL>show spheres, solvent and chain A. Many commands (like color, show, etc.) take an atom selection argument to only operate on a subset of all atoms in the scene. Together with supporting libraries and applications, it forms the X11.app that Apple shipped with OS X versions 10.5 through 10.7. PyMOL's selection language allows to select atoms based on identifiers and properties.
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The XQuartz project is an open-source effort to develop a version of the X.Org X Window System that runs on macOS.
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