Changes between Version 3 and Version 4 of NIAID2023

Timestamp:

May 25, 2023, 1:35:51 PM (2 years ago)

Author:

Elaine Meng

Comment:

--

NIAID2023

@@ -41 +41 @@
  a. Submit monthly written reports of accomplishments
 
+== 5/25/2023 ==
+
+Phil, Darrell, Kristen Browne, Andi Bueckle; Scooter, Zach, Selina, TomG, Eric, Elaine 
+
+Scooter describes Alex Pico's recent Wikipathways work
+
+Kristen: only one new thing for NIH3D since last time; pdbe biounit url was broken, didn't fall back to pdb. Original ticket was about obsolete entries, should make a new ticket for failure to fall back.
+
+There was an issue with vertex colors in gltf, ChimeraX default gltf save behavior was changed to not include them for single-color objects. Need to get daily build.
+
+Another issue was higher-resolution surfaces from Chimera than ChimeraX. Phil made a table comparing # vertices etc. for several example structures of different sizes, we're not sure why there are so many more triangles from the NIH3D pipeline than in ChimeraX directly. Maybe the sharp boundaries parameter?  None of their colorings are per atom, only per chain, by ESP, or by MLP. So they could turn that option off (sharpBoundaries false).
+
+Phil didn't get a chance to look at the pseudobonds-not-connecting issue.
+
+Andi's writing up something but it's not yet ready for discussion.
+
+TomG: maybe the study should use the standalone VR approach with Quest 2.  Andi: is this available as a build?  He will take a look at [https://www.rbvi.ucsf.edu/chimerax/data/looksee-mar2023/looksee.html Tom's demo]
 
 == 5/11/2023 ==
 
-Phil, Scooter, Zach, Renata, Greg, Tom, Eric. Kristin, Meghan
+Phil, Scooter, Zach, Renata, Greg, Tom, Eric, Elaine, Kristin, Meghan
 
 Mehgan: Dmitry at Seattle doing VR work including with clinical applications