Difference between revisions of "WebDev 2016.02.23-Agenda and Minutes"

From WormBaseWiki
Jump to navigationJump to search
Line 10: Line 10:
  
 
== Data visualization ==
 
== Data visualization ==
- committed gbrowse file
+
- committed gbrowse config files for WS252
 
- jbrowse:
 
- jbrowse:
- jq tool:
+
* [https://stedolan.github.io/jq/ jq] tool:
* really easy to insert a field into all JSON objects
+
** really easy to insert a field into all JSON objects
* doubles as a JSON validator, helped fixing some formatting issues
+
** doubles as a JSON validator, helped fixing some formatting issues
- found and fixed 2 missing tracks
+
* found and fixed 2 missing tracks for WS252
- Working with WebApollo people on handling subtracks
+
* Installed test instance of JBrowse 1.12.0 (currently using 1.11.6)
 +
* Working with WebApollo people on handling subtracks, there is an example in the [http://dev.wormbase.org:10004/index.html?data=data%2Fc_elegans_simple&loc=I%3A9861261..9879060&tracks=Curated%20Genes%20(protein%20coding)%2CPHA-4%20(Pol%20II%20ChIP)%3A%20Combined&highlight=  1.12.0 test instance here]. Note that several issues remain, the most notable of which is that it won't draw data until you zoom or pan around.
  
 
== Database migration ==
 
== Database migration ==

Revision as of 14:52, 23 February 2016

Agenda

Administrative notes

Web development

WS252 widget related issues mostly resolved, except genetic widget on variation page and (something else). Bioproject suffix issues with multiple strains from the same species are resolved Comversation with GO people about gene model graph

Data visualization

- committed gbrowse config files for WS252 - jbrowse:

  • jq tool:
    • really easy to insert a field into all JSON objects
    • doubles as a JSON validator, helped fixing some formatting issues
  • found and fixed 2 missing tracks for WS252
  • Installed test instance of JBrowse 1.12.0 (currently using 1.11.6)
  • Working with WebApollo people on handling subtracks, there is an example in the 1.12.0 test instance here. Note that several issues remain, the most notable of which is that it won't draw data until you zoom or pan around.

Database migration

- Working with Juancarlos to get him access to Datomic REST API - Split repo into one repo per project:

  • ACeDB to Datomic
  • ...

- Will finish setting up DynamoDB ready to run ACeDB to Datomic, needs to:

  • configure transactor for DynamoDB
  • setup permission
  • wait on model file from hinxton

- Working on documentation

Intermine / InterMOD progress

Outstanding issues

Nothing needs discussion.

Minutes