Source:
https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/source/releases/coot-1.1.12.tar.gz
Release 1.1.12
o TERMINAL OUTPUT: Coot's startup, in particular the graphics and
Python, have
lately been problematic (i.e. flaky/broken). Different operating
systems,
different drivers, and different versions of Python add to the
complexity.
We have spent quite some time refactoring this - and especially so
in the
last few weeks. To help diagnose what is going wrong on startup I have
increased the amount of diagnostic information on the terminal - so
it's a
bit ugly at the moment.
When issues have been resolved and the startup is stable, I will
reduce/remove
the diagnostics.
o FEATURE: new chapi functions:
add_terminal_residue_directly()
copy_molecule()
flood()
get_validation_vs_dictionary_for_selection()
servalcat_refine_xray()
get_torsion()
change_alt_locs()
split_residue_using_map()
get_missing_residue_ranges()
get_mutation_info()
set_temperature_factor_using_cid()
Pythonic API:
https://www.mrc-lmb.cam.ac.uk/lucrezia/libcootapi-documentation/api.html
C++ API:
https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/docs/api/html/
o FEATURE: Added graphics viewport scaling
o FEATURE: Added Acedrg link interface
o FEATURE: HOLE interface has been restored
o FEATURE: Transform map by LSQ model fit has been restored
o BUG-FIX: --code <accession-code> now works again after XDG
Directory Protocol
update
o BUG-FIX: Fix the use of the no-recentre-view in coordinate file
open dialog
o BUG-FIX: Contact dots for ligands now show ligand donor to water
H-bonds
o BUG-FIX: One can no longer refine using a CCD dictionary [Lorenzo
Masso]
o BUG-FIX: Use the correct shader for surfaces in "Plain" mode
o BUG-FIX: LSQ Fit dialog now works
o BUG-FIX: CYS with hydrogen atoms no longer try to make SS bonds
[Jordan Dialpuri]
o BUG-FIX: End-of-chain TER atom now removed on adding a new terminal
residue
o BUG-FIX: Dark mode icons now work in Layla
o BUG-FIX: Use a wider window on startup on macOS
o BUG-FIX: Global Phasing column labels F_early-late now auto-read
o BUG-FIX: Delete Hydrogen atom in Layla now works
o CHANGE: Remove/reduce framebuffer usage in --opengl-es mode
o CHANGE: Module menus depthonized
o CHANGE: Overlay added for Cryo-EM "Flip Hand" tool
o CHANGE: Pythonic start-up has been changed - hopefully improved
o KNOWN-BUGS: Ramachandran Plot display on (some?) macOS
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