Changes between Initial Version and Version 1 of 2016-10-20


Ignore:
Timestamp:
Oct 20, 2016, 3:08:38 PM (9 years ago)
Author:
Conrad Huang
Comment:

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  • 2016-10-20

    v1 v1  
     1= Attendees =
     2
     3  Elaine, Eric, Greg, Conrad, TomG, TomF
     4
     5= Agenda =
     6  * Chimera 1.11.2 release
     7  * ChimeraX issues
     8    * Metadata for tools/bundles
     9    * Segfault in threads
     10    * Toolshed
     11    * Cytoscape link
     12  * Assign required site-visit functionality to people
     13  * Discussion of site visit scenarios
     14
     15= Discussion =
     16  * Chimera 1.11.2 release
     17    - We have not received any reports for scrolling or gesture bugs with TomG's fixes
     18    - Both CATH and SCOP fetching are broken
     19      - CATH programmatic web access is suspended
     20      - SCOP still needs looking into but is close (Eric)
     21    - Wait for another week when notifications of new version gets delivered to users
     22      - TomG will send mail to chimera-users to ask people to stop avoiding Sierra
     23  * ChimeraX issues
     24    * Qt UI issue
     25      - See if we can get floating panel not to sit in front of all other windows, even other applications (Eric)
     26    * MAV
     27      - Working on matching for site visit demos (Eric)
     28    * Metadata for tools/bundles
     29        1. ~~Rename "tools" to "bundles", "gui.py" to "tool.py"
     30        2. ~~Add support for new metadata format in toolshed
     31           - ~~Include backwards compatibility with bundles with old metadata style code
     32           - ~~Including refactoring "fetch" code
     33           - ~~Initialization order should be based on dependency
     34        3. ~~Migrate limited set of bundles to test new code
     35        4. Migrate remaining bundles (in progress, Greg)
     36        4a. Need to add specifier for binary vs text file input
     37        5. Delete code for old metadata
     38    * Segfault in threads
     39      - Still affecting Scooter
     40      - There are three thread invocation locations involved when a crash occurs (Conrad)
     41    * blastpdb tool is working
     42    * Toolshed tool
     43    * Cytoscape link
     44  * Assign required site-visit functionality to people
     45    * Cytoscape and REST interface (Conrad, Scooter)
     46      - StructureVizX and RINalyzer mostly work
     47    * ~~Side view on !PyQt (Greg)
     48    * Toolshed server side (Conrad)
     49      - ~~CyAppStore running on https://cxtoolshed.rbvi.ucsf.edu
     50      - uploading works
     51    * Toolshed client side (Conrad)
     52      - toolshed tool almost works
     53    * Toolshed internals (Greg)
     54      - Need function for installing bundle from local wheel file
     55    * Ribbons (Conrad)
     56      - Half of Elaine's issues addressed
     57    * ~~IHM cross-link distribution histograms (TomG)
     58      - Interest from SJ and Ilan
     59    * ~~Interface viewer (TomG)
     60      - Add selection outlines on 2D plot from 3D selection (defer?)
     61    * IHM mmCIF support (TomG)
     62      - Burley and Westbrook are very impressed by image with 2DEM, crosslink, disordered region, etc.
     63    * MAV (Eric)
     64      - Opens FASTA files only (for now)
     65      - Shows alignments
     66      - Associates sequences with structures
     67      - Implementing site visit requirements
     68    * ~~blastpdb (Conrad)
     69      - Works
     70    * Reach goals
     71      * String database (Scooter, Conrad)
     72      * Hydrogen bonds and contacts (Eric)
     73      * Link to NGL, !LiteMol (Scooter, Conrad, Greg)
     74      * Molprobity on Opal (Scooter)
     75      * Domains
     76        * Web service, Uniprot? (Eric)
     77        * Integration into hierarchy (Eric)
     78        * Interactive 2D graph (team)
     79      * Hierarchy browser
     80      * UI cleanup (team)