Hopping onto this thread: Besides the sugar connectivity, I see that when I Draw > Sequence View, the sequence opens in a pop-up window instead of the main window and does not show gaps or numbering. This is coot 0.9.8.5 from ccpem nightly 20221108 on M1 chip, Mac OS Monterey 12.6.
From: Mailing list for users of COOT Crystallographic Software <[email protected]> on behalf of Xavier Brazzolotto <[email protected]> Date: Wednesday, November 16, 2022 at 10:04 AM To: [email protected] <[email protected]> Subject: Re: MacCoot 0.9.8.5 issues H Paul, * When I delete a molecule, my Coot/X11 window « disappears ». It is not closed/killed but somehow minimized. I can get it back from my dock, but a bit annoying. Here’s what the console says. (set-delete-residue-mode) (2) " O5 "/1/chainid="A"/625/FUC, occ: 1.000 with B-factor: 66.076 element: " O" at (26.959,-34.446,11.593) : 0.132 INFO:: backup file name coot-backup/_Users_xbrazzolotto_Desktop_Crystallography_20221116_MR37216_MR-CoX_Phenix_MR372016_20221116_refine_3-coot-1.pdb_Wed_Nov_16_18:30:17_2022_modification_11.pdb.gz (delete-residue 2 "A" 625 "") (clear-pending-delete-item) Pending Picks Cleared (delete-residue-by-atom-index 2 4280 1) debug:: g.safe_scheme_command() with command post-manipulation-hook I have not heard of that before. The terminal doesn’t seem to report any bug, this is probably related to macOS. It's just annoying, it still works, it is not like it crashes every time I delete a molecule. * When I build sugar chains with the N-linked Glycan module, they are not building correctly. It looks like it messes up with the wrong atom for linking. I am part-way through a fix for this. It is high priority and will require a new release. Good to know that it is already known and handled. Will wait for the next release. It may be to restore a previous coot version (without such bugs) by downgrading the last update of CCP4i Thanks Xavier ________________________________ To unsubscribe from the COOT list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=COOT&A=1 ######################################################################## To unsubscribe from the COOT list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=COOT&A=1 This message was issued to members of www.jiscmail.ac.uk/COOT, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
