SWUG Timeline 2010-2011 (Archived)
Automatically generated from excel file in cvs: timelines/SWUG-timeline-2010-to-2011.txt
Do not edit this table directly
(NOT YET COMPLETE, IN PROGRESS)
PROJECT | LEAD/PERSONNEL | Groups | 10-Jul | 10-Aug | 10-Sep | 10-Oct | 10-Nov | 10-Dec | 11-Jan | 11-Feb | 11-Mar | 11-Apr | 11-May | 11-Jun | 11-Jul | 11-Aug | 11-Sep | 11-Oct | 11-Nov | 11-Dec |
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Compositional Term Submission Tool | Chris | Ontology Development | #v1 beta, #curator_testing DONE | #v1 release, regulation rollout DONE; #v1_report DONE | #integrate_autocomplete (dep: Full Text Indexing | rollout #additional_templates as required | rollout #additional_templates as required | rollout #additional_templates as required | rollout #additional_templates as required; plan #v2 in java/OWL | OWL #Reasoner_Benchmarks | Complete feasibility study - java/OWLAPI port (dep: Transition to OWL) | Prototype java/OWLAPI version (TBD: assign developer) | Junit test suite | beta java/OWLAPI version {TBD: assign developer} | production java/OWLAPI version {TBD: assign developer} | |||||
OBO-Edit MIREOT support | Amina | Ontology Development | beta with isa closure support DONE | release of 2.1, with isa closure support | evaluate future requirements | |||||||||||||||
Transition to OWL | Chris | Ontology Development | #obof1.4_guide DRAFT release DONE | #obof1.4_guide DRAFT collect comments | #obof1.4_syntax spec DRAFT release | obof1.4 feature freeze | obo abstract syntax to #OWL2_mapping, incl IAO | obof1.4 formal spec release | #Java_OBO_Parser spec | #Java_OBO_Parser impl (TBD: assign developer) | #JUnit_Test_Suite | OBO Parser to #OWLAPI_Bridge | #Integration - add bridge to P4 | |||||||
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Full Text Indexing | Seth | Evaulate Solr DONE | Install Solr on labs DONE | GO-Solr Index engine | GO-Solr Index engine optimizations | Integrate into labs: queries | Integrate into labs: autocomplete | Public version using Solr for queries | Public version with autocomplete | Advanced queries via solr (labs) | ||||||||||
Col16 in AmiGO | Seth | Annotation_Advocacy_and_Coordination | db storage plan | load c16 into db, labs | load c16 into db, public | display c16, labs | query on c16, labs | display c16, public | ||||||||||||
Relation Filtering in AmiGO | Seth | Release #database_reasoner DONE | Relation Filtering in #map2slim | Relation Filtering in #Term_Enrichment | Relation Filtering in main display | |||||||||||||||
AmiGO and QuickGO Integration | Seth; Tony | QuickGO #graph views in AmiGO (labs) | Feasibility study of deeper integration | TBD | ||||||||||||||||
RefGenome Views | Seth | Reference Geome | basic js Phylo viewer in AmiGO labs DONE | Grid view integrated with js phylo view | ||||||||||||||||
RefGenome Reports | Sven; Mary, Seth | Reference Geome | load gp2pthr family info DONE | basic html reports in labs | gp2family in pulic release | load full pthr tree | example tree queries in GOOSE | |||||||||||||
IndiGO Annotation Editor | Seth; Tony | Annotation_Advocacy_and_Coordination | Evaluation of protein2go architecture DONE | Feasibility study | specification of REST API for ontology info | specification of REST API for annotation create/update | ||||||||||||||
GO Galaxy Environment | Seth; Amelia | alpha on labs DONE | map2slim | GAF fetching | enrichment | AmiGO integration (labs) | obo2owl | visualization | AmiGO integration (public) | |||||||||||
Taxon Constraint Engine | Chris, Amelia | Annotation_Advocacy_and_Coordination Ontology Development | v1 running weekly DONE | #v1 maintenance | #v1 maintenance | #v1 maintenance | feasibility: web editing of taxon constraints | plan v2 in java/OWL (dep: Transition to OWL) | prototype java/OWL version | production java/OWL version | web interface and editing of constraints | |||||||||
Function to Process Inference Engine | Chris | Annotation_Advocacy_and_Coordination Ontology Development | v1 running weekly DONE | #v1 maintenance | #v1 maintenance | #v1 maintenance | plan v2 in java/OWL (dep: Transition to OWL) | prototype java/OWL version | production java/OWL version | |||||||||||
Additional Expressivity in GO Annotations | Amelia | Annotation_Advocacy_and_Coordination Ontology Development | GAF2 publishing DONE | feasibility: integrating pathway/GO data | LEGO feasibility | |||||||||||||||
Annotation Rule Engine | Amelia | Annotation_Advocacy_and_Coordination Ontology Development | Collect rules on wiki DONE | Specify XML format | Collect rules into XML | alpha version of rule engine | integrate SQL rules into engine | integrate scripting rules into engine | evaluate OWLAPI, SPARQL, RIF for use in rules engine | OWL inferences | ||||||||||
Incremental Database Loading | Ben | Annotation_Advocacy_and_Coordination | #benchmarks | java parsers implemented | java bulkload dumpers | sql loader | ||||||||||||||
Virtualization | Seth+Ben | #feasibility_study | create test VM | Distribute VM | ||||||||||||||||
Advanced AmiGO Displays | Seth | N-matrix alpha on labs DONE | Ontology-annotation grid view (labs) | integration with N-matrix amigo environment | ||||||||||||||||
Schema Overhaul | Chris | plan | ||||||||||||||||||
AmiGO overhaul | Seth | |||||||||||||||||||
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ONGOING | ||||||||||||||||||||
OBO Edit Development | Amina | Ontology Development | 2.1 betas DONE | 2.1 stable beta testing | 2.1 public | determine 2.2 requirements | evaluate P4 architecture | implement simultaneous obo/owl save in P4 | autodetect of file changes in OE | feasibility study of OE as P4 plugin | ||||||||||
AmiGO Development | Seth | #1_8 labs DONE | #1_8 public | |||||||||||||||||
PAINT Development | Suzi | Reference Geome | ||||||||||||||||||
Production | Ben | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ||||
Website | Amela | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | ONGOING | |||
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