Older News

Older News

• ContactsNCONT—The script selects residues and atoms from the list of the contacts found by NCONT from CCP4 Program Suite
• PCR Rap video made with PyMOL (YouTube).
• Reformatted Main Page. Some delays might occur from resizing images, but that should go away once the images are cached.
• New — Search the PyMOLWiki via GoogleSearch
• PyMOL is known to work under Mac OS X 10.6+ (Snow Leopard) using the new Fink and incentive builds. See Installing PyMOL under Fink.
• PyMOL now has a Set command for basic settings, and a Set_bond command for bond-only settings.
• PyMOL now comes with some builtin examples: look in the examples directory of your source tree.
• group command has been added.
• The truly awesome grid_mode setting has been added.
• Ellipsoids representation added for drawing thermal ellipsoids.
• GetNamesInSel — find the names of all objects in a selection.
• CalcArea — find the area of any given object/selection;
• ConnectedCloud — find connected clouds of objects in PyMOL.
• MakeVinaCommand — Use PyMOL to create a valid command line for the new Vina docking software.
• DrawBoundingBox — Draw a bounding box around your selection.
• Locate loaded PyMOL objects that are nearby some other object with FindObjectsNearby.
• Ever wanted to load all the PDBs in a directory within PyMOL? Now you can load all files in a dir with LoadDir.
• PDB Web Services Script — Example using PyMOL and the PDB Web Services.
• LigAlign — Ligand-based active site alignment and comparison.
• Added a simple script for finding the center or mass, or moving a selection to the origin.
• Added links in the table on the Main Page (above) for submitting & tracking bugs and feature reqeuests. ♦ New logo for the wiki. It's DNA. You can easily see the major/minor grooves. If you don't see it, force a reload of the page (CTRL-F5, usually).
• New category about PyMOL performance: making the impossible possible, and the difficult easier/faster.

• ImmersiveViz -- Headtracking user interface for PyMOL (watch the video)!
• Colorama --a PyMOL plugin which allows to color objects using adjustable scale bars
• ProMOL plugin added. Catalytic site prediction, other tools. Redirects to website.
• EMovie plugin added. Easy movies in PyMol using a GUI.
• DYNMAP plugin page created. Check it out!
• EZ-Viz

• Stereo 3D Displays.
• Massively restructured the TOPTOC and make the OLD_TOPTOC for the older version. Still need to add more content to the TOPTOC.
• Added a simple script for removing specific alternately located atoms.
• Added a starter gallery of PyMOL-created Journal Covers.
• Added some information on how PyMOL handles Nonstandard_Amino_Acids.
• Downtime: The PyMOLWiki underwent some downtime due to FS problems. There are also upgrades planned for this week, so we may expect a little downtime for that. We've been very fortunate to have hosting from BitGnome.Net; they've done an incredible job!
• Gallery -- Did you make a cool image? Pop it into the PyMOLWiki Gallery with the PyMOL command you used. Looking for a particular representation--start here (new!).

• Updated the wiki. Also installed the newer GeSHI extension. Please keep an eye out for source code that is improperly tagged and so improperly formatted. See GeSHI Parameters.
• Adding a special category/section for active PyMOL Development.
• PyMOL 1.0 has been released!
• PyMOL Official Documentation is also available for subscribers.

• New PyMol Features: Nucleic Acid Representation Settings & Examples.
• Cool new Plug-In: Show NMR Constrains.
• Check out PyMol's new Nucleic Acid Rendering
• Added DynoPlot script for plotting data within PyMol; an interactive Ramachandran plot.
• Added Kabsch script for optimal alignment of two sets of vectors.
• Some details have been released about 0.99beta11's release and new features.

• A new map function is in the beta build, Map_Trim.
• Details on how to build peptide sequences and nucleic acid sequences by hand.
• New Transform_odb script to transform coordinates with .odb file from O or LSQMAN

• How to create multiple Distance objects.
• Nuccyl's address changed.

• PyMol gets some new features. PyMol 0.99beta07 added these commands for testing, check out the new

1. Draw command and,
2. Spheres Shader Spheres represenation

• Also, Ray and Draw now show oversized images scaled into the viewport.

• CE Align v0.8-RBS released. Better than before. See test case comparisons.
• Slerpy, a set of pymol command extensions to simplify complex movie making is now available.
• Updated the Kabsch code with a more elegant solution; fixed a small rotation bug.