Re: [PyMOL] custom labels losing their colors on ray tracing [EXTERNAL]

Please unsubscribe Op 21-08-19 20:28 heeft Dyda via PyMOL-users geschreven: Hi Thomas, Thanks. In the meantime I figured that the problem was a larger than 0.0 setting of spec_direct that washes out the label colors. Setting it 0.0 solves it at a price of some

[PyMOL] aberrant behavior of mouse clicks in PyMOL

Hi All, I’m experiencing very annoying behavior of mouse clicks when there are more than one molecule in ASU. Upon opening the window cartoon mode is showing. If I click on the part of first listed molecule then all look good. However, if I click on the part of the second molecule then

Re: [PyMOL] custom labels losing their colors on ray tracing

Hi Thomas, Thanks. In the meantime I figured that the problem was a larger than 0.0 setting of spec_direct that washes out the label colors. Setting it 0.0 solves it at a price of some image degradation. Fred ***

Re: [PyMOL] HELIX and SHEET records not read by Pymol

Hi Thomas, I have no idea why, but it seems to work for me when following your instructions. Perhaps because I deleted everything except for the ATOM records? Thanks for looking into it! Best wishes, Chris

Re: [PyMOL] How to calculate rmsd between each state of a MD simulation trajectory and a reference structure?

Hi Yeping, The return value of cmd.align() is documented here: https://pymolwiki.org/index.php/Align#PyMOL_API Cheers, Thomas > On Aug 20, 2019, at 5:15 AM, sunyeping via PyMOL-users > wrote: > > Hello Mat, > > Thank you for your reply. > I followed your codes in the second line and get

Re: [PyMOL] HELIX and SHEET records not read by Pymol

Hi Chris, Works for me. Do you have an example file that doesn't work for you? "Works for me" steps to reproduce: - remove everything but ATOM records from 1ubq.pdb (raw.pdb) - run stride on raw.pdb - paste stride output on website - paste website result into PDB file (stride.pdb) - load