Projects update meeting 2022-03-23: Difference between revisions
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* Members: David, Huaiyu, Kimberly, Pascale, Seth, Suzi, Paul, Chris, Cynthia | * Members: David, Huaiyu, Kimberly, Pascale, Seth, Suzi, Paul, Chris, Cynthia | ||
* Present: | * Present: David, Huaiyu, Kimberly, Pascale, Seth, Suzi, Paul, Cynthia | ||
* Regrets: | * Regrets: Paul | ||
[https://docs.google.com/document/d/1r3aWGjyz2nXNpyzETPO-ah276HQDc1ClNs57Cm6Nwv0/edit Main tasks - Jan-July 2022] | |||
=Announcements= | =Announcements= | ||
* Preparing GOC meeting: start planning the agenda | * Preparing GOC meeting: start planning the agenda: https://drive.google.com/drive/folders/1Y5DfKpQu4tGxDmJaH-nHDDNkFy5x-w6B | ||
== Follow up from last meeting== | == Follow up from last meeting== | ||
* wiki move | * wiki move (this is it) | ||
* [http://wiki.geneontology.org/index.php/Projects_update_meeting_2022-03-16#Model_copy Google drive move] | * [http://wiki.geneontology.org/index.php/Projects_update_meeting_2022-03-16#Model_copy Google drive move] | ||
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===Alliance software support=== | ===Alliance software support=== | ||
Seth | Seth | ||
[https://github.com/orgs/geneontology/projects/76 Alliance software support] | [https://github.com/orgs/geneontology/projects/76 Alliance software support] (noting split with https://github.com/orgs/geneontology/projects/92) | ||
===Noctua improvement and maintenance=== | ===Noctua improvement and maintenance=== | ||
* Status and next steps | * Status and next steps | ||
** [https://github.com/orgs/geneontology/projects/65 Noctua 2021] | ** [https://github.com/orgs/geneontology/projects/65 Noctua 2021] | ||
** [https://github.com/orgs/geneontology/projects/46 Noctua 2020] | ** [https://github.com/orgs/geneontology/projects/46 Noctua 2020] - reviewed remaining outstanding tickets and closed project as of 2022-03-18 | ||
*** Two tickets moved to neo project | |||
*** Two tickets moved to current project - done | |||
*** Two put back into repos for future discussion | |||
=== | ===MOD imports=== | ||
* [https://github.com/orgs/geneontology/projects/ | * Review projects, decide what's in scope | ||
* [https://github.com/orgs/geneontology/projects/58 MGI] - [https://github.com/orgs/geneontology/projects/59 WB] - [https://github.com/orgs/geneontology/projects/61 SGD] | |||
===New visual editor=== | |||
Ready to deploy? | |||
===QC & Pipeline and Essential software maintenance=== | ===QC & Pipeline and Essential software maintenance=== | ||
Release last week (March 16th); anything to report?what resources are needed until the next release stats? | Release last week (March 16th); anything to report?what resources are needed until the next release stats? | ||
===Update annotation documentation=== | |||
* [https://github.com/orgs/geneontology/projects/89 Update annotation documentation] | |||
Pascale -> would like to wait until the wiki and the G drive are moved | |||
===New projects to create=== | ===New projects to create=== | ||
* Manager new users more actively (+ all contributing groups, in particular those not attending GOC and annotation calls) | * Manager new users more actively (+ all contributing groups, in particular those not attending GOC and annotation calls) | ||
== Currently active projects== | == Currently active projects== | ||
{| class="wikitable sortable" | {| class="wikitable sortable" | ||
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| [https://github.com/orgs/geneontology/projects/67 Annotation Extension Relation Review] | | [https://github.com/orgs/geneontology/projects/67 Annotation Extension Relation Review] | ||
| '''PI:''' , '''PO:''' Kimberly, '''TL:''' , '''Others:''' David, Dustin, Pascale | | '''PI:''' , '''PO:''' Kimberly, '''TL:''' , '''Others:''' David, Dustin, Pascale | ||
| | | TBD - after some projects are closed | ||
| | | | ||
| | | | ||
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| [https://github.com/orgs/geneontology/projects/77 Yeast Pathways] | | [https://github.com/orgs/geneontology/projects/77 Yeast Pathways] | ||
| '''PI:''' Paul, '''PO:''' , '''TL:''' Dustin, '''Others:''' | | '''PI:''' Paul, '''PO:''' , '''TL:''' Dustin, '''Others:''' | ||
| | | 2022-03-20 | ||
| | | | ||
| No | | No |
Latest revision as of 03:30, 29 March 2022
Attendees
- Members: David, Huaiyu, Kimberly, Pascale, Seth, Suzi, Paul, Chris, Cynthia
- Present: David, Huaiyu, Kimberly, Pascale, Seth, Suzi, Paul, Cynthia
- Regrets: Paul
Announcements
- Preparing GOC meeting: start planning the agenda: https://drive.google.com/drive/folders/1Y5DfKpQu4tGxDmJaH-nHDDNkFy5x-w6B
Follow up from last meeting
- wiki move (this is it)
- Google drive move
Project updates
Alliance software support
Seth Alliance software support (noting split with https://github.com/orgs/geneontology/projects/92)
Noctua improvement and maintenance
- Status and next steps
- Noctua 2021
- Noctua 2020 - reviewed remaining outstanding tickets and closed project as of 2022-03-18
- Two tickets moved to neo project
- Two tickets moved to current project - done
- Two put back into repos for future discussion
MOD imports
New visual editor
Ready to deploy?
QC & Pipeline and Essential software maintenance
Release last week (March 16th); anything to report?what resources are needed until the next release stats?
Update annotation documentation
Pascale -> would like to wait until the wiki and the G drive are moved
New projects to create
- Manager new users more actively (+ all contributing groups, in particular those not attending GOC and annotation calls)
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 | ||||||
Finalize AmiGO default relation change (Aim 3) | AmiGO default relation GH project | PI: Chris, PO:Chris, TL: Seth, Others: Seth | 2022-03-30 | Yes | To review and close after the next release. Webpage on relations need improvement (Chris, Pascale) | |
Software improvements : GO API | GO API | PI: Chris, PO:??, TL: Seth, Others: Sierra | Review status 2022-04-20 | Yes | Will review at the end of April to see the status of the project | |
Software improvements : pipeline cleanup | PLANNING Pipeline cleanup | PI: Chris, PO:??, TL: Seth, Others: Seth, Dustin, Sujay? | Review specs & scope 2022-04-20 | Yes | Planned for April | |
Alliance software support | Alliance software support | PI: , PO:??, TL: Seth, Others: | 2022-03-23 | No | ||
Noctua improvement and maintenance | Noctua 2021 & Noctua 2020 | PI: Paul , PO: Kimberly, TL: Seth, Others: Tremayne, Jim | 2022-03-23 | No | ||
GO_REFs | GO_REFs | PI: Chris, PO: Chris, TL: Seth, Others: Sujay, some of Sierra | 2022-04-20 | Yes | ||
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 | 2022-03-30 | Yes | Seth will look into a strategy - week of March 16th | |
New visual editor (Tremayne) -> ready to push to Noctua dev? | Visual Pathway editor GH project | PI: Paul, PO: Paul, TL:, Others: Tremayne | 2022-03-23 | Yes | Ready for release to prod? Present at March 22 annotation call | |
Model copy | PLANNED Old Shallow Model Copy GH project | PI: Paul, PO: Kimberly, TL: Jim, Others: Tremayne | 2022-03-30 - Review status | Yes | Aim to present at GOC meeting (or announce work is ongoing) | |
Noctua output | GPAD output | PI: Chris, PO: Kimberly, TL:?, Others: Jim | 2022-03-30 - Review specs | +/- : Planned for March, but project not yet defined or resourced | David will split into 3 projects: (1) GPAD for MOD imports (done); (2) remove redundancy in exports (high priority); (3) problems with complicated models | |
Simple version of automation of Noctua updates (planned) | Noctua updates | PI: Chris, PO: TBD, TL: Seth, Others: | 2022-03-30 - Review status | Yes | ||
Complete MOD imports (Aim 2) | ||||||
Define specific remaining tasks for MOD imports + choose priorities for this period | To be created - MGI - WB - SGD | PI: Chris, PO: Kimberly, TL: Seth, Others: David, Suzi, Dustin | 2022-03-23 | No | ||
Annotation Extension Relation Review | Annotation Extension Relation Review | PI: , PO: Kimberly, TL: , Others: David, Dustin, Pascale | TBD - after some projects are closed | |||
Integrate YeastPathways in GO Cam | Yeast Pathways | PI: Paul, PO: , TL: Dustin, Others: | 2022-03-20 | No | ||
Ontology (Aim 1) | ||||||
Phylogenetic taxon constraints | TC GH project - ontology repo | PI: Paul, PO: Pascale, TL: Jim, Others: | 2022-04-20 | Yes | ||
Outreach/usability (Aim 3) | ||||||
Switch to “species” for download outputs | PLANNED Improved Downloads ???? | PI: , PO:, TL:, Others: | 2022-03-23 - Review specs | No | ||
Outreach - collect teaching materials in Google drive? | PI: Mike , PO: Suzi, TL:, Others: | 2022-04-xx before the GOC meeting | No | |||
Noctua training material | Noctua training Project | PI: Mike , PO: Suzi, TL: NA, Others: David | 2022-04-20 | Yes | After/around the ZFIN training session | |
Other projects | ||||||