Revision as of 16:27, 17 October 2013

Agenda

where should we store these?
- acedb + website flat file
- website flat file only with only database name and description stored in acedb
can there be an easier way to update the URL/URIs on the web

3d build time, checkpoints used to resume
sequences for proteins and genomic features for all species except C.sp 5 and C.sp.11
richer classes to query (example RNAi, etc.)
link to JDs wiki:
CDS locations not included in WS239

current: flatfile in the github repository (problem: wrong formatted commits)
future: potentially an update form/site
proposal: remove the URLs from database (to make it clear the repository is the canonical source)
proposal: remove the URL_constructor from model

we could add ncRNAs to the other non-cores from other databases (Hinxton) and look through literature (CalTech)

@@ Line 4: / Line 4: @@
 * maybe JD can give an overview of the new things
 * Thoughts, reactions?
-WormMine WS239 is now up for testing:
-Please find the new WormMine build here:
-http://206.108.125.174:8080/wormmine/begin.do
-Data changes from WS238:
-* genomic fasta, protein fasta, genes from gff3, transcripts from gff3 has been expanded to represent all species in wormbase (besides any of the "sp" species)
-* the fields of data for each Ace type has been expanded.  Wiki has been updated: http://wiki.wormbase.org/index.php/WormMine#Data_contained_in_WormMine
-* RNAi included
-* CDS locations have been temporarily omitted due to them being loaded incorrectly in the last build.
-Build released to curators for testing, will be pushed to production once approved.
 ==database URL/URIs==