ChimeraX 1.0 rc cannot restore old sessions

[mgm@…]

Hi,

The mac version of 1.0 rc daily 19052020 is unable to open session files from version 0.93.  The following message appears:


To Restore session:
Install Std-Commands bundle version 1.0 or newer

Unable to restore session: need to install missing bundle

If you click on the hyperlink in the Std-Commands text, Toolshed reports request unknown.

I’m running macOS 10.14.6 on an i7 proc with 32 GB RAM.

Regards



MGM




Martin G Montgomery
Senior Scientist
ATP Synthase Group
MRC Mitochondrial Biology Unit
University of Cambridge
The Keith Peters Building
Cambridge Biomedical Campus
Hills Road 
Cambridge
Great Britain
CB2 0XY

www.mrc-mbu.cam.ac.uk

[pett]

Reported by Martin Montgomery

[Greg Couch]

This was caused by the rename from Std-Command to StdCommands.

[pett]

How am I supposed to fix it exactly?

[pett]

Kind of also begs the question of why a session would depend on StdCommands? What state could it be saving?

[goddard@…]

I'd bet named views were in the session.  The view command in StdCommands implements that.

[pett]

Okay, using a session with a named view saved from 0.93, I can sort of reproduce this. The error is somewhat different:

Unable to restore all of session; missing bundle: ChimeraX-Std-Commands

No hyperlink or other info. Also, nothing restored!

[pett]

I'm fixing this.

[pett]

Fixed. Will be in the next release candidate.

[mgm@…]

Hi,
Yes, named views were in the session.  I have a session file that contains everything I need to make figures for a paper.  With pymol, I saved the get_view matrix in a text file for each view which meant that with one session file I could easily recreate the views if I needed to go back and tweak a figure.  In ChimeraX, the closest way that I found to replicate this was to use named views.  Am happy to supply a session file if it helps also happy to be educated if there is a better way of doing this, especially as now the ChimeraX session files can get rather large.

Cheers

MGM

Martin G Montgomery
Senior Scientist
ATP Synthase Group
MRC Mitochondrial Biology Unit
University of Cambridge
The Keith Peters Building
Cambridge Biomedical Campus
Hills Road 
Cambridge
Great Britain
CB2 0XY

www.mrc-mbu.cam.ac.uk

[pett]

Hi Martin,

Do you mind if I put your latest response on the chimera-users mailing list so that it can be answered there by other ChimeraX team members with better expertise with those features and so that other Chimerax users can benefit also?

--Eric

[mgm@…]

Hi Eric,

That’s fine by me.  Apologies for the delays in responses.  Our mail server connection to the outside was off for a while yesterday.

Regards

MGM