Difference between revisions of "WormBase-Caltech Weekly Calls"

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[[WormBase-Caltech_Weekly_Calls_July_2021|July]]
 
[[WormBase-Caltech_Weekly_Calls_July_2021|July]]
  
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[[WormBase-Caltech_Weekly_Calls_August_2021|August]]
  
  
== August 5, 2021 ==
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== September 2, 2021 ==
  
=== Proxy issue resolved ===
+
1. Moving forward with Alliance-friendly Person pages for community curation/authorship tracking<br>
* Not clear what the problem was, but Sibyl transferred to new machine and now it works
+
Needed for
* Could be a firewall issue somewhere but it isn't clear
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*AFP community curation
 +
*microPublication author tracking for all species
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*stub of person Alliance model already exists made by Adam http://dev.alliancegenome.org:11223/redoc#tag/Person
  
=== Textpresso-Dev transfer ===
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Problems:
* Michael ordered hard drive
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*this is not an Alliance-wide interest for tracking their communities person; however, Alliance is not against person pages, just not supportive of developing this class into the many ways it will be useful for us and our communities
* Working on transfer
+
*need to do this outside of Alliance
* Do we need more backup? Have partial backup on AWS; will make complete
 
  
 +
Action
 +
*Paul talks to zfin about interest in person pages
 +
*Juancarlos talks to Cecilia -need to know important elements to make author to person connection for biolink schema
 +
*Daniela and Karen invite PomBase to start harmonizing a person model, will send all Alliance an invite
  
== August 12, 2021 ==
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Will do
 +
*create biolink model based on current WB postgres/Caltech model
 +
*Adam will add tables when we have them
  
=== CeNGEN graph on gene pages ===
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2. Need to make sure CenGen stuff is included in this next release - need to request Todd to delay release until Adam returns from vacation to deal with it.
* We would like to show an expression level graph on each gene page. CeNGEN prefers something similar to what we have for FPKM expression.
 
* Sibyl drafted a prototype that is 2D so that it solves the issue of fitting into one page width while making highly expressing cells prominent.
 
 
 
 
 
== August 19, 2021 ==
 
 
 
=== Caltech hosted CGIs ===
 
* Caltech IMSS is blocking some WB IP addresses likely from nefarious actors on AWS, thereby breaking WB links to Caltech-hosted CGIs
 
* Although WB uses dedicated AWS IPs, those some how still got on a black list.
 
* The ultimate solution is to move all services answering WB queries to AWS, so there is no extr-AWS network traffic.
 
* Could non-SObA CGIs move to different servers (AWS?)?
 
* SObA is resource intensive when new releases are being built but otherwise memory requirements can be tuned (affecting caching) for serving queries. We can use a local machine for building a release and then transfer the built database to a live machine in the cloud. This approach also alleviates some sysadmin load for Caltech.
 
 
 
== August 26, 2021 ==
 
 
 
=== New Wormicloud features ===
 
* Clustering similar words in word clouds
 
* Counter with the number of objects already curated by WB for papers returned by searches
 
 
 
=== Changes to Transgene OA autocomplete ===
 

Revision as of 17:10, 2 September 2021

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September 2, 2021

1. Moving forward with Alliance-friendly Person pages for community curation/authorship tracking
Needed for

Problems:

  • this is not an Alliance-wide interest for tracking their communities person; however, Alliance is not against person pages, just not supportive of developing this class into the many ways it will be useful for us and our communities
  • need to do this outside of Alliance

Action

  • Paul talks to zfin about interest in person pages
  • Juancarlos talks to Cecilia -need to know important elements to make author to person connection for biolink schema
  • Daniela and Karen invite PomBase to start harmonizing a person model, will send all Alliance an invite

Will do

  • create biolink model based on current WB postgres/Caltech model
  • Adam will add tables when we have them

2. Need to make sure CenGen stuff is included in this next release - need to request Todd to delay release until Adam returns from vacation to deal with it.