Changes between Initial Version and Version 1 of Ticket #19566, comment 4


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Timestamp:
Jan 6, 2026, 11:38:19 AM (2 weeks ago)
Author:
Tom Goddard

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  • Ticket #19566, comment 4

    initial v1  
    1 {{{
     1
    22I’m confused: isn’t mesh inherently transparent?
    33
    44My entire intention in using mesh would be to have it be transparent, marking a surface while allowing the skeletal structure to be visible inside.  (Though the mesh density is so great that it isn’t, in fact, very transparent, so it’s probably not useful in the end.)
    5 
    6 
    7 
    8 On 06 Jan 2026, at 14:27, ChimeraX <ChimeraX-bugs-admin@cgl.ucsf.edu> wrote:
    9 
    10 #19566: Mesh blocked by transparent surface
    11 --------------------------------+-------------------------
    12          Reporter:  bec2@…     |      Owner:  Tom Goddard
    13              Type:  defect     |     Status:  closed
    14          Priority:  normal     |  Milestone:
    15         Component:  Graphics   |    Version:
    16        Resolution:  not a bug  |   Keywords:
    17        Blocked By:             |   Blocking:
    18 Notify when closed:             |   Platform:  all
    19           Project:  ChimeraX   |
    20 --------------------------------+-------------------------
    21 Changes (by Tom Goddard):
    22 
    23 * resolution:   => not a bug
    24 * status:  assigned => closed
    25 
    26 Comment:
    27 
    28 If your mesh is opaque and your surface is transparent then the mesh is
    29 completely visible through the transparent surface.  Your problem is the
    30 mesh is also transparent.  The ChimeraX limitation is that with two
    31 transparent objects only the frontmost is visible.  While this is a
    32 limitation it is also a useful feature.  It gives a better appearance for
    33 transparent molecular surfaces of proteins with for example cavities
    34 because you only see the front-most surface instead of all the layers.
    35 The appearance with all the layers is complex and often less useful than
    36 the single-layer transparency.
    37 --
    38 Ticket URL: <https://nam11.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Ftrac%2FChimeraX%2Fticket%2F19566%23comment%3A3&data=05%7C02%7Cbec2%40duke.edu%7Cae054e37b991468aee0108de4d59aca5%7Ccb72c54e4a314d9eb14a1ea36dfac94c%7C0%7C0%7C639033244728963814%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=7UVcifz%2F%2B2wh80Vj%2BsqITGjyUJpzMVWeLT2KYLC7sJg%3D&reserved=0>
    39 ChimeraX <https://nam11.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimerax%2F&data=05%7C02%7Cbec2%40duke.edu%7Cae054e37b991468aee0108de4d59aca5%7Ccb72c54e4a314d9eb14a1ea36dfac94c%7C0%7C0%7C639033244728990128%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=U%2FG8jRBbcAK%2FNzD6p5RHpegg9GvbMRw46YAPEBeL%2FLQ%3D&reserved=0>
    40 ChimeraX Issue Tracker
    41 
    42 ---
    43 Brian E. Coggins, Ph.D.
    44 Assistant Research Professor of Biochemistry
    45 Duke University, Durham, NC
    46 
    47 
    48 
    49 }}}