Session restoring problem

[scsafari@…]

Hello,

I have generated several session with chimerax and some of them cannot be reopened again once chimerax is closed.

Here you can see the error log:

Summary of feedback from opening /Users/scharasafarian/Sandra_paper_figures/Cs_data/Cs_figure12.cxs
error	Unable to restore session, resetting.

Traceback (most recent call last):
File "/private/var/folders/hd/1f0b0lvn1879z9fw3rmxrkbw0000gn/T/AppTranslocation/2E4DBF96-0C06-495F-8E52-E251ED885D0F/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/session.py", line 526, in restore
obj = sm.restore_snapshot(self, data)
File "/private/var/folders/hd/1f0b0lvn1879z9fw3rmxrkbw0000gn/T/AppTranslocation/2E4DBF96-0C06-495F-8E52-E251ED885D0F/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/seq-view/tool.py", line 507, in restore_snapshot
inst = cls(session, bundle_info.tools[0].name)
IndexError: list index out of range

opened ChimeraX session
open <help:user/commands/open.html> /Users/scharasafarian/Sandra_paper_figures/Cs_data/Cs_figure12.cxs
Summary of feedback from opening /Users/scharasafarian/Sandra_paper_figures/Cs_data/Cs_figure12.cxs
error	Unable to restore session, resetting.

Traceback (most recent call last):
File "/private/var/folders/hd/1f0b0lvn1879z9fw3rmxrkbw0000gn/T/AppTranslocation/2E4DBF96-0C06-495F-8E52-E251ED885D0F/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/session.py", line 526, in restore
obj = sm.restore_snapshot(self, data)
File "/private/var/folders/hd/1f0b0lvn1879z9fw3rmxrkbw0000gn/T/AppTranslocation/2E4DBF96-0C06-495F-8E52-E251ED885D0F/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/seq-view/tool.py", line 507, in restore_snapshot
inst = cls(session, bundle_info.tools[0].name)
IndexError: list index out of range


Is there a work around this problem?

Best

Schara
Dr. Schara Safarian
Max Planck Institut für Biophysik 
Abteilung für Molekulare Membranbiologie

Max Planck Institute of Biophysics 
Department of Molecular Membrane Biology 

Max-von-Laue-Straße 3
60438 Frankfurt am Main
Deutschland/Germany

[Eric Pettersen]

Hi Schara,

I believe the problem you're reporting was fixed at the beginning of February. Could you try a current version of ChimeraX and see if that can restore the session?

--Eric

Eric Pettersen

UCSF Computer Graphics Lab

[scsafari@…]

Dear Eric,

that was the first thing I tried, but unfortunately without any success.

I have attached the session file to this email, if this might help.

Best

Schara

Cs_figure12.cxs​

untitled-part.html​

[scsafari@…]

Added by email2trac

[scsafari@…]

Added by email2trac

[Eric Pettersen]

The name of one of the tool bundles changed; here’s a fixed version of your session file that opens in the current ChimeraX.

—Eric

Cs_figure12-fixed.cxs​

[Eric Pettersen]

Added by email2trac

[Eric Pettersen]

Not a bug per se, since we are not yet guaranteeing session file compatibility between different versions of ChimeraX.

[scsafari@…]

Dear Eric,

sorry for the inconvenience but this error seems to be reoccurring. I do not understand wether this is something I cause or it is a general problem?

In either way, I would be extremely thankful if you could correct these two files as well for me, since they are for a publication we want to submit this week.

Thank you so much.

Best
Dr. Schara Safarian
Max Planck Institut für Biophysik 
Abteilung für Molekulare Membranbiologie

Max Planck Institute of Biophysics 
Department of Molecular Membrane Biology 

Max-von-Laue-Straße 3
60438 Frankfurt am Main
Deutschland/Germany

Cs_figure12-fixed_9.cxs​

untitled-part-1.html​

Sodium_density_IFC4.cxs​

untitled-part-2.html​

[scsafari@…]

Added by email2trac

[scsafari@…]

Added by email2trac

[scsafari@…]

Added by email2trac

[scsafari@…]

Added by email2trac

[Eric Pettersen]

Those sessions use volumetric data files that are not stored in the session file itself. Since I have no access to those files, I can't restore the session and save a new one for you to use. What I _have_ done is to put the "temporary"workaround I was using into the code permanently (well, I may take it out eventually -- but it will be in there for many months at least). So, if you get tomorrow's daily build you should be able to restore those sessions yourself. Looks for daily builds dated September 25th or later.

--Eric