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schrodinger / pymol-open-source

Open-source foundation of the user-sponsored PyMOL molecular visualization system.
https://pymol.org/
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Error about building model #252

Closed hexa-tert closed 2 years ago

hexa-tert commented 2 years ago

When I try to build a protein model by clicking build>residue>Leucine, It shows codes below:

Traceback (most recent call last): File "E:\Pymol\pymol\lib\site-packages\pymol_gui.py", line 193, in ('command', lab, lambda v=val: cmd.editor.attach_amino_acid('pk1', v)) File "E:\Pymol\pymol\lib\site-packages\pymol\editor.py", line 108, in attach_amino_acid bound_count = _self.count_atoms("bound_to " + selection) File "E:\Pymol\pymol\lib\site-packages\pymol\querying.py", line 1460, in count_atoms r = _cmd.select(_self._COb,"_count_tmp","("+str(selection)+")",1,int(state)-1,str(domain)) pymol.CmdException: Error: Invalid selection name "pk1". ( bound_to pk1 )<--

I can't find anyone else has the same problem on google, could anyone help me figure this out?

JarrettSJohnson commented 2 years ago

I can't reproduce on Open-Source but I can reproduce on the other versions. Can you confirm?

Also, fab command and using the builder panel GUI works for me on the incentive/EDU versions. Can you see if that works for you.

hexa-tert commented 2 years ago

I can't reproduce on Open-Source but I can reproduce on the other versions. Can you confirm?

Also, fab command and using the builder panel GUI works for me on the incentive/EDU versions. Can you see if that works for you.

I just downloaded the old version - pymol 2.5.2 and it works very well. My laptop had a win11 system, might have some crush with new version.

JarrettSJohnson commented 2 years ago

Thanks for confirming. And just FYI, the download that exists on the pymol.org website is not the open source version. As such, I'll close this ticket and we'll resolve this issue accordingly with incentive version 2.5.5 in the upcoming weeks.