wiki:2021-1-7

Attendees

  • Eric, Greg, TomG, Elaine, Scooter, TomF

Agenda

  • Action items
  • Chimera
    • Remove web option from AutoDock Vina and PDB2PQR in 1.16 daily build?
    • RMF reading broken on Mac in 1.15
  • ChimeraX
    • Whither Qt support? Qt 5.15.3 is commercial only. Qt 6 is open source.
    • PySide2 vs PyQt5 - lacking OpenGL support, webcam support, no response from pyside2 mailing list or pyside bug report.
  • Funding
    • NETE - plan for next contract
    • CZI Visual Proteomics Imaging RFA, due Feb 21, 2021
    • R24 plan, NIAID or NIGMS
    • U24 funding, this is what Cytoscape applied for.
  • SPOKE

Discussion

  • New group meeting time
    • Group meeting changed to 11 AM Thursday to allow time for lunch.
  • Vaccine distribution
    • Scooter volunteering.
    • Up to 1 person vaccinated every minute at Mission Hall in Mission Bay.
  • Chimera
    • Eric will remove the AutoDock Vina web interface from Chimera daily build.
    • Eric will spend no more than a day trying to fix the Chimera RMF linking problem.
  • ChimeraX
    • We stick with Qt 5.15.2 for now.
    • Qt license for 3 developers is $12,000 per year.
    • Would be desirable to switch to the qt python module shim that handles either PyQt or PySide. Tom will look at this is feasible.
    • Tom Ferrin says UC Tech Transfer and UCOP agreed to public ChimeraX source code on GitHub.
    • TomG sent email to Chris Swain proposing workshop ideas on Dec 17 but he has not replied.
  • NETE
    • Next contract areas: VR, HuBMAP, segmentation
    • Possibly continued support for NIH 3D pipeline if needed.
    • We need to draft a new contract in cooperation with Darrell by February 15.
    • We will need to make a "task order", and hope to have funding start March 1.
  • U24
    • Possible funding mechanism for ChimeraX.
    • U24 allows engineering and support. It is a contract rather than a grant.
    • Recent funding application for Cytoscape was an NIGMS U24. Do not have results yet.
    • Ask if NIAID has U24 RFA, see if other NIH institutes have U24. If NIAID, could continue working with Darrell BCBB projects through a U24.
  • VPN
    • Scooter is using VPN on linux. Having Alex try to set it up. Still needs to write setup instructions.
    • VPN is seeing significant use.
    • Next VPN step is to try to setup Duo 2-factor authentication using a shim in front of Radius server. Scooter will try this although it will disrupt VPN use. Apparently you request the type of 2-factor authentication (push, text, ubikey) by putting a ",push" after your password.
  • Backups
    • In event of a ransomware attack we need tape backup index files and software to be able to restore from tape. Eric will make a tar file with those and it will be distributed to different safe locations.
    • Eric will make a shell script to run backups from cron. Currently many commands in cron. This will allow Eric to adjust script.
    • Discussion of whether additional plato directories beyond /etc should be backed up.

Action Items

  • Remove AutoDock Vina web interface from Chimera daily build. Eric
  • Fix Chimera RMF linking problem, limit to 1 day effort. Eric
  • Create backup shell script that is run from cron. Eric
  • Evaluate if qt shim handling PyQt and PySide is feasible. TomG
  • Figure out what additional plato directories need backup. Scooter
  • Try to setup 2-factor authentication for vpn, Scooter
  • Test new vpn on linux and document. Scooter
  • Reply to Chris Swain about ChimeraX 2 hour workshop. TomG
  • Put ChimeraX license up on github: TomF
  • Verify that public ChimeraX github ok, UCSF Tech Transfer? TomF will check
  • Put important feature enhancements, already done or planned, on roadmap. TomG, Eric, Elaine, Greg
Last modified 5 years ago Last modified on Jan 7, 2021, 4:53:31 PM
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