Changes between Version 28 and Version 29 of NeteSOW

Timestamp:

Oct 22, 2020, 2:10:49 PM (5 years ago)

Author:

Elaine Meng

Comment:

--

NeteSOW

@@ -115 +115 @@
 Darrell, Meghan, Phil, Philip, Kristen, Victor; Greg, Elaine, Eric, TomG
 
-Topics: 
 - Scooter on vacation for a month, sailing home from Mexico, returns Nov 22 (Elaine: this is approximate, weather-dependent)
  
-- NIH 3D pipeline
+NIH 3D pipeline:
 
- - Will convert 3D Print Exchange scripts to ChimeraX
-  - Joined GitHub repository for scripts setup by Philip Macmenamin, 2-factor authentication; seems that 2FA wil not be a problem for our day-to-day work
-  - Got 3 scripts from Phil Cruz
-  - Eric: the 2 shorter scripts are in good shape, few issues:
+- Working on converting their scripts to ChimeraX
+ - Joined github repository for scripts set up by Philip; it  seems that 2-factor authentication will not be a problem for our day-to-day work
+ - Got 3 scripts from Phil Cruz
+ - Eric: only few issues with the 2 shorter scripts
     - ChimeraX does not write VRML; not absolute requirement, can convert glb to vrml in separate step
     - ChimeraX "graphics quality" can be used to adjust numbers of triangles for STL output
     - no incremental radius adjustment a la Chimera vdwdefine plus/minus; Eric will supply python to do this 
     - no combine, why was it used?  Phil: to handle biological assemblies that were multiple models.  Eric: now the fetch gets the assemblies as single models
-  - Philip asks about taking all the file reading and branching out of the ChimeraX scripts and instead have several separate ChimeraX scripts that are called; however, parsing with ChimeraX has several advantages
-  - Phil: actually may want to combine small-molecule and macromolecule scripts into one to reduce user error; distinction is presence of "standard residues" (biopolymer chains)
-  - Darrell: how about also combining with volume script, have ChimeraX identify if upload is map?  Eric: should be doable, at least if filename has standard suffix
-  - Darrell: will also need to distinguish which database goes with an identifier for fetch purposes
-  - Phil: if REST, is a hybrid approach possible? 
- - Eric improved error reporting in JSON
+ - Philip asks about taking all the file reading and branching out of the ChimeraX scripts and instead have several separate ChimeraX scripts that are called; however, parsing with ChimeraX has several advantages
+ - Phil: actually may want to combine small-molecule and macromolecule scripts into one to reduce user error; distinction is presence of "standard residues" (biopolymer chains)
+ - Darrell: how about also combining with volume script, have ChimeraX identify if upload is map?  Eric: should be doable, at least if filename has standard suffix
+ - Darrell: will also need to distinguish which database goes with an identifier for fetch purposes
+ - Phil: if REST, is a hybrid approach possible? 
+ - Eric has improved error reporting in JSON
 
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