Difference between revisions of "WBConfCall 2015.09.03-Agenda and Minutes"

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== Datomic Progress ==
 
== Datomic Progress ==
  
Paul:
+
* Paul and Gary: porting, perl scripts for querying datomic
Gary: porting, perl scripts for querying datomic
+
* Juancarlos: finished working through documentation
Juancarlos: finished working through documentation
+
* Adam:  
Adam:  
+
** Method for provisioning machines with Datomic, website, etc.
* Method for provisioning machines with Datomic, website, etc.
+
** Using Docker to be able to quickly deploy going forward.
* Using Docker to be able to quickly deploy going forward.
+
** Makes future development much easier, good error reporting
* Makes future development much easier, good error reporting
 
  
Genetomic / curation database
+
== Genetomic / curation database ==
* close to be ready to production, but not quite ready
+
* TH: Is the genetomic instance in production?
 +
* TD: Not yet in production but close; requires input from Mary Ann and others.
  
 
+
== WormMethods chapters==
WormMethods chapters
 
 
PWS: getting some reviews back
 
PWS: getting some reviews back
  
=== Models ===
+
== Models ==
 
* PD: Deadline for proposals is next week
 
* PD: Deadline for proposals is next week
  
PATO
+
=== PATO ===
 
* RL: Do we need to extend the model to accommodate the ontology? Is there a name class?
 
* RL: Do we need to extend the model to accommodate the ontology? Is there a name class?
 
* CG: Cost for creating a new class?
 
* CG: Cost for creating a new class?
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* Discussion about whether or not we will show the data on the website
 
* Discussion about whether or not we will show the data on the website
 
* CG: will create a new class for PATO
 
* CG: will create a new class for PATO
* -- discussion about who handles obo->ace files: individual curators.
+
* -- discussion about who handles obo->ace files: individual curators. do, they aren't handled generically.
 
 
 
* DR: Hold off on changes for micropublication (?Expression_patt)
 
* DR: Hold off on changes for micropublication (?Expression_patt)
  
 
------> DISCONNECTED <------ sorry
 
------> DISCONNECTED <------ sorry
  
 +
=== Other model changes ===
 +
** Molecule
 +
** Expression_cluster
 +
** Human_disease (Xiaodong)
 +
** GO_term (addition to ?Paper)
  
Expression_cluster
+
* Raymond: should we go through a two tier process for models?
Human_disease (Xiaodong)
+
** 1. Review process
GO_term (addition to ?Paper)
+
** 2. Put it into the models file
 
 
Raymond: should we go through a two tier process for models?
 
* 1. Review process
 
* 2. Put it into the models file
 
 
 
PD: discussion typically occurs before the proposal hits the model list?
 
RL: Caltech is dispersed and the expertise is deluded.
 
 
 
WC: How do model changes work for Datomic?
 
 
 
PD:
 
 
 
TH: So do we want to formalize/enhance the model proposal process?
 
 
 
PD: Will come up with a working document.
 
  
--
+
* PD: discussion typically occurs before the proposal hits the model list
 +
* RL: Caltech is dispersed and the expertise is deluded.  ky: although that is what I heard too; perhaps it's supposed to be "diluted"? -- ''Yes, it was a joke to see if anyone was paying attention''
 +
* WC: How do model changes work for Datomic?
  
Intermine:
+
* *PD: Will come up with a working document.*
SG: Webapp is running and still a few small issues
 
  
 +
== Intermine ==
 +
* SG: Webapp is running and still a few small issues
  
GBrowse/JBrowse
+
== GBrowse/JBrowse==
* SC:  
+
* SC: most modencode data ported, will be promoting jbrowse in 250.
  
WS250
+
== cross MOD API grant ==
* Promoting JBrowse
+
* PWS: looks like will be funded

Latest revision as of 01:51, 5 September 2015

Agenda

1

2

Minutes

Datomic Progress

  • Paul and Gary: porting, perl scripts for querying datomic
  • Juancarlos: finished working through documentation
  • Adam:
    • Method for provisioning machines with Datomic, website, etc.
    • Using Docker to be able to quickly deploy going forward.
    • Makes future development much easier, good error reporting

Genetomic / curation database

  • TH: Is the genetomic instance in production?
  • TD: Not yet in production but close; requires input from Mary Ann and others.

WormMethods chapters

PWS: getting some reviews back

Models

  • PD: Deadline for proposals is next week

PATO

  • RL: Do we need to extend the model to accommodate the ontology? Is there a name class?
  • CG: Cost for creating a new class?
  • TD: already bringing in .obo files from other ontologies
  • Discussion about whether or not we will show the data on the website
  • CG: will create a new class for PATO
  • -- discussion about who handles obo->ace files: individual curators. do, they aren't handled generically.
  • DR: Hold off on changes for micropublication (?Expression_patt)

> DISCONNECTED <------ sorry

Other model changes

    • Molecule
    • Expression_cluster
    • Human_disease (Xiaodong)
    • GO_term (addition to ?Paper)
  • Raymond: should we go through a two tier process for models?
    • 1. Review process
    • 2. Put it into the models file
  • PD: discussion typically occurs before the proposal hits the model list
  • RL: Caltech is dispersed and the expertise is deluded. ky: although that is what I heard too; perhaps it's supposed to be "diluted"? -- Yes, it was a joke to see if anyone was paying attention
  • WC: How do model changes work for Datomic?
  • *PD: Will come up with a working document.*

Intermine

  • SG: Webapp is running and still a few small issues

GBrowse/JBrowse

  • SC: most modencode data ported, will be promoting jbrowse in 250.

cross MOD API grant

  • PWS: looks like will be funded