Reset seq_rmsd with new matchmaker

[matt.jaremko@…]

Hello ChimeraX Team,

How do I reset the seq_rmsd values? When rendering the seq_rmsd values from a 2nd round of matchmaker showA true, the program still uses the previous values. Currently, I must restart ChimeraX to reset the seq_rmsd values.

Thank you,
Matt


Matt J. Jaremko, Ph.D. (He|Him)
Senior Scientist | Protein & Structural Chemistry
Merck Research Labs | 126 E Lincoln Ave | 80B 1012 | Rahway, NJ 07065
Cell:  808.741.6277 | Email:  matt.jaremko@merck.com<mailto:matt.jaremko@merck.com>
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[matt.jaremko@…]

Added by email2trac

[pett]

Is the second round of matchmaker between the same models? And how are you determining that the seq_rmsd values are not changing? If you are using the Render/Select by Attribute tool, you need to ensure that the models chosen its "Models" list are the ones involved in the second round of matchmaking.

[matt.jaremko@…]

Hello,

This seems to occur when I use the Render/Select by Attribute tool, but not when I run from the command line. I can use that for now.

Thanks!
Matt

From: ChimeraX <ChimeraX-bugs-admin@cgl.ucsf.edu>
Date: Tuesday, March 11, 2025 at 2:33 PM
To: pett@cgl.ucsf.edu <pett@cgl.ucsf.edu>, Jaremko, Matt Joseph <matt.jaremko@merck.com>
Subject: Re: [ChimeraX] #17066: Reset seq_rmsd with new matchmaker
EXTERNAL EMAIL– Use caution with any links or file attachments.

#17066: Reset seq_rmsd with new matchmaker
-------------------------------------+----------------------
          Reporter:  matt.jaremko@…  |      Owner:  pett
              Type:  defect          |     Status:  feedback
          Priority:  normal          |  Milestone:
         Component:  Sequence        |    Version:
        Resolution:                  |   Keywords:
        Blocked By:                  |   Blocking:
Notify when closed:                  |   Platform:  all
           Project:  ChimeraX        |
-------------------------------------+----------------------
Changes (by pett):

 * status:  accepted => feedback

Comment:

 Is the second round of matchmaker between the same models?  And how are
 you determining that the seq_rmsd values are not changing?  If you are
 using the Render/Select by Attribute tool, you need to ensure that the
 models chosen its "Models" list are the ones involved in the second round
 of matchmaking.
--
Ticket URL: <https://www.rbvi.ucsf.edu/trac/ChimeraX/ticket/17066#comment:2>
ChimeraX <https://www.rbvi.ucsf.edu/chimerax/>
ChimeraX Issue Tracker
This e-mail message, together with any attachments, contains information of Merck & Co., Inc. (126 East Lincoln Ave., P.O. Box 2000, Rahway, NJ USA 07065) and/or its affiliates, that may be confidential, proprietary copyrighted and/or legally privileged.   (Direct contact information for affiliates is available at - Contact us - MSD<https://www.msd.com/contact-us/>.)  It is intended solely for the use of the individual or entity named on this message. If you are not the intended recipient, and have received this message in error, please notify us immediately by reply e-mail and then delete it from your system.

[pett]

For me, the Render/Select by Attribute histogram updates appropriately as long as I have the correct models chosen in the model list at the upper right of the dialog.

[matt.jaremko@…]

Gotcha, thanks. I think its working for me now.

Thank you!

Matt

From: ChimeraX <ChimeraX-bugs-admin@cgl.ucsf.edu>
Date: Wednesday, March 12, 2025 at 4:11 PM
To: Jaremko, Matt Joseph <matt.jaremko@merck.com>, pett@cgl.ucsf.edu <pett@cgl.ucsf.edu>
Subject: Re: [ChimeraX] #17066: Reset seq_rmsd with new matchmaker
EXTERNAL EMAIL– Use caution with any links or file attachments.

#17066: Reset seq_rmsd with new matchmaker
--------------------------------------+--------------------
          Reporter:  matt.jaremko@…   |      Owner:  pett
              Type:  defect           |     Status:  closed
          Priority:  normal           |  Milestone:
         Component:  Sequence         |    Version:
        Resolution:  can't reproduce  |   Keywords:
        Blocked By:                   |   Blocking:
Notify when closed:                   |   Platform:  all
           Project:  ChimeraX         |
--------------------------------------+--------------------
Changes (by pett):

 * resolution:   => can't reproduce
 * status:  feedback => closed

Comment:

 For me, the Render/Select by Attribute histogram updates appropriately as
 long as I have the correct models chosen in the model list at the upper
 right of the dialog.
--
Ticket URL: <https://www.rbvi.ucsf.edu/trac/ChimeraX/ticket/17066#comment:4>
ChimeraX <https://www.rbvi.ucsf.edu/chimerax/>
ChimeraX Issue Tracker
This e-mail message, together with any attachments, contains information of Merck & Co., Inc. (126 East Lincoln Ave., P.O. Box 2000, Rahway, NJ USA 07065) and/or its affiliates, that may be confidential, proprietary copyrighted and/or legally privileged.   (Direct contact information for affiliates is available at - Contact us - MSD<https://www.msd.com/contact-us/>.)  It is intended solely for the use of the individual or entity named on this message. If you are not the intended recipient, and have received this message in error, please notify us immediately by reply e-mail and then delete it from your system.

[pett]

Glad to help.

--Eric