Changes between Initial Version and Version 1 of phenix-4-10-25


Ignore:
Timestamp:
Apr 8, 2025, 1:52:25 PM (8 months ago)
Author:
Eric Pettersen
Comment:

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  • phenix-4-10-25

    v1 v1  
     1= Phenix =
     2
     3=== Local EM Fitting ===
     4 * Results dialog improvements
     5   - Limits scores to a reasonable number of digits
     6   - Keep sharpened map if shown
     7   - Symmetry copies
     8   - In-dialog help text, and adjusted size
     9   - Dock dialog so it's not easily lost
     10 * Alerted Randy that emplace_local is broken in the latest Phenix release candidate
     11
     12=== Fit Ligand ===
     13 * Sent Dorothee what I would need in ligandfit JSON output
     14 * Tested a few systems and sent a problem report to Tom Terwilliger
     15   - Ligandfit was rejecting valid ligand PDB files
     16
     17= ChimeraX completed =
     18 * Integrated LAMMPS into main ChimeraX code
     19 * Session saving support in Profile Grids:
     20 * Significantly improved perceived load time of large alignments
     21   - Suppress unnecessary copying of sequences
     22   - If >10000 sequences, don't use AL2CO
     23   - Cache sequence information when computing identity histogram
     24 * Made "original look" preset undo tube helices
     25 * Fixed memory leak in command atom specs
     26 * Developer documentation:
     27   - Discussed the use of keyword args in commands
     28   - Described the Qt shim
     29 * Structure matching using alignment sequences; options:
     30   - High identity
     31   - Iteration
     32   - Just active region
     33   - Create region showing match
     34 * Sequence renaming
     35 * Aniso command
     36 * Deployed !UserError alternative for tools