Dear Paul Congratulations on the release! I've started using 0.9-pre recently instead of 8.9.2.
I like the menu changes and of course the new refinement menu and the way it works. The small dots on the CAs are truly very useful! The glyco module is also very nice! There's probably a ton more I'll discover later, looking forward to it! Cheers Folmer ons. 1. apr. 2020 09.14 skrev Paul Emsley <[email protected]>: > Coot 0.9 is released. > > This release has been a long-term effort (4 years according to my > notes). It is powerful but not as > clean and stable as I would have liked, but I don't want to delay any > longer. Many of the additions > and updates have been focused on the problems posed by cryo-EM > reconstructions. > > I will be building some binaries shortly. > > Paul. > > o REQUIREMENT: C+11 required for compilation > > o REQUIREMENT: Boost required for compilation > > o FEATURE: Automatic addition of alpha helix, nucleic acid stacking > and pairing restraints and > metal coordination bond restraints > > o FEATURE: Standard molecular representation now has "atoms" (not > just bonds). > Waters are balls, not crosses > > o FEATURE: interactive representation of Ramachandran and rotamer > probabilities during refinement > Add set_show_intermediate_atoms_rota_markup() > Add set_show_intermediate_atoms_rama_markup() > > o FEATURE: Curlew (the Extensions Wrangler) now has a menu item and > has been redesigned > > o FEATURE: Added function "Go To Middle of Cryo-EM Reconstruction > Molecule" > > o FEATURE: Sharpen/blur map feature added > > o CHANGE: Improved Real Space Refinement - now refinement is > on-going instead of activated by > dropping (releasing) the atom > > o CHANGE: Multi-threaded code for real-space refinement, jiggle-fit, > rotamer probabilities, > atom overlaps, restraints generation, density contouring > > o CHANGE: Improved Jiggle Fit > > o CHANGE: All option menus replaced by comboboxes > > o CHANGE: The non-bonded contact model is now Lennard-Jones > > o CHANGE: Lidia chemical diagram rendering improvements > > o CHANGE: "Hit" atom radius increased for atom picking > > o CHANGE: Chiral atom restraints tightened, torsion restraints use a > canonical cosine form > > o CHANGE: Rotamer fitting deletes clashing waters > > o CHANGE: Origin marker is now white > > o CHANGE (API): Add access to CaBLAM markup > > o CHANGE (API): Create multiple maps based on atom selection masking > > o CHANGE (API): Add access to shift-field B-factor refinement > (algorithm from Kevin Cowtan) > > o BUG-FIX: Improved XML parsing of molecules from Wikipedia > > o BUG-FIX: Align & Mutate output fixed > > ######################################################################## > > To unsubscribe from the COOT list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=COOT&A=1 > ######################################################################## To unsubscribe from the COOT list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=COOT&A=1
