Projects update meeting 2022-05-04
Attendees
- Members: David, Huaiyu, Kimberly, Pascale, Seth, Suzi, Paul, Chris, Cynthia
- Present:
- Regrets:
Consortium meetings
Fall GOC meeting
- Decide on date, location
- Include SAB meeting?
Spring GOC meeting
Discussion points
Chris proposes for all organisms to use Uberon for annotation --- for mammals specifically Cjm (talk) 20:05, 3 May 2022 (EDT)
Project updates
Projects near completion
Can we assign time to complete the tasks?
- Noctua 2021 (3 tickets left)
- Visual Pathway editor v1.0: Need to complete documentation; Pascale to do this week (May 2-6)
- Simple version of Noctua updates
- Increase number of annotable entities in Noctua / NEO
- Who is the PO on this project?
- Note that Debbie Siegele has asked for addition of phage proteins
- Google drive move: @cmungall @huaiyumi @vanaukenk @thomaspd still have unmoved files
Task Matrix
- Needs updating for May
- Need to define what projects Tremayne is working on (nothing assigned)
Currently active projects
| Project name | Link to GH project | Resources: PI, PO, TL, Other resources | Next review | Follow up review | Aligned with Matrix? | Notes |
|---|---|---|---|---|---|---|
| Software improvement | ||||||
| Software improvements : GO API | GO API | PI: Chris, PO:??, TL: Seth, Others: Sierra | Yes | Project continues in May - schedule next review + estimate date of completion | ||
| Software improvements : pipeline cleanup | PLANNING Pipeline cleanup | PI: Chris, PO:??, TL: Seth, Others: Seth, Dustin, Sujay? | Status still Planning | |||
| Alliance software support | Alliance software support | PI: , PO:??, TL: Seth, Others: | ||||
| Noctua improvement and maintenance | Noctua 2021 | PI: Paul , PO: Kimberly, TL: Seth, Others: Tremayne, Jim | ||||
| GO_REFs | GO_REFs | PI: Chris, PO: Chris, TL: Seth, Others: Sujay, some of Sierra | Was supposed to end in April; make new estimate of time needed | |||
| Ongoing data QC and pipeline maintenance | Ongoing data QC and pipeline maintenance | PI: Chris, PO:Pascale, TL: Seth, Others: Seth, Dustin, Sujay, Jim? | Ad hoc if there is a big bug | Yes | ||
| Essential software maintenance | Essential software maintenance | PI: Chris, PO:Pascale, TL: Seth, Others: Seth, Dustin, Sujay, Jim? | Ad hoc if there is a big bug | Yes | ||
| Remove some main roadblocks for GO-CAM models curation (Aim 2) | ||||||
| NEO load of new sequences | NEO load GH project | PI: Chris, PO: Pascale , TL:, Seth Others: Sujay | ||||
| Noctua Visual editor (Tremayne) - V1.0 done | Visual Pathway editor GH project | PI: Paul, PO: Paul, TL:, Others: Tremayne | Yes | Need to complete documentation (Pascale + Kimberly, David, Paul, Patrick proof read) | ||
| Model copy | PLANNED Old Shallow Model Copy GH project | PI: Paul, PO: Kimberly, TL: Jim, Others: Tremayne | Yes ? | Is this Jim's next priority? | ||
| Simple version of automation of Noctua updates | Noctua updates | PI: Chris, PO: TBD, TL: Seth, Others: | ||||
| Complete MOD imports (Aim 2) | ||||||
| MOD imports | MGI - WB - SGD | PI: Chris, PO: Kimberly, TL: Seth, Others: David, Suzi, Dustin | ||||
| Integrate YeastPathways in GO Cam | Yeast Pathways | PI: Paul, PO: , TL: Dustin, Others: | ||||
| Ontology (Aim 1) | ||||||
| PI: , PO: , TL: , Others: | ||||||
| Outreach/usability (Aim 3) | ||||||
| PI: , PO: , TL: , Others: | ||||||
| Projects to prioritize | ||||||
| Switch to “species” for download outputs | PLANNED Improved Downloads ???? | PI: , PO:, TL:, Others: | ||||
| Noctua output | PLANNING GPAD outputs- Complex Models and Redundancy Filtering | PI: Chris, PO: Kimberly, TL:?, Others: Jim | ||||
| Next Noctua tasks | ||||||
| Annotation Extension Relation Review | Annotation Extension Relation Review | PI: , PO: Kimberly, TL: , Others: David, Dustin, Pascale | ||||
| ECO-GO Alignment | ECO-GO Alignment | |||||
| GO rules, including missing valid rules from the report | ||||||
| Phylogenetic taxon constraints | TC GH project - ontology repo | PI: Paul, PO: Pascale, TL: Jim, Others: | ||||
| Manage users more actively (+ all contributing groups, in particular those not attending GOC and annotation calls) | PI: Mike , PO: Suzi, TL:, Others: | |||||
| Noctua training material | Noctua training Project | PI: Mike , PO: Suzi, TL: NA, Others: David | Develop new training materials based on MGI and ZFIN training | |||
| Other projects | ||||||
Future topic/project
Seth
- What stats do we want to track, what do we need? Thinking grants, official reports, etc.
- End-of-year summary stats for users, downloads?
- Coming from consideration of log retention (policy) for some systems
- This has been pretty ad hoc; do we want/need more structure with this?
- Straw proposal: yearly roll of S3 logs, tooling to make extraction and use easier (need a policy of some kind)