2014-03-18 Tuesday Team Meeting
Dundee: Gus, Andrew, Colin, Dominik, Emil, Balaji, Graeme, Kenny, Chris, Will, June, Mark, Jason, Blazej, Simon
Remote: Carlos, Sebastien B, Douglas, Helen, Curtis, Mark H, Sebastien S, Andreas, Ian, Ola, Kelli, Josh M, Melissa,
Agenda - 2:30pm Start
Accepting minutes from last meeting
Project Status/Testing Update
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5.0.1 status
- Josh will open 5.0.2 and push some
- All remaining 5.0.1 tickets need to be assigned, discussed etc
- Chris - upgrade-check timeout is “blocker” 12097. 3 PRs. Please give feedback, comments. No 4.4 merge build
- Josh - usability of in-place import is biggest issue
- Quick look at https://trello.com/b/dNYTeT0b/upcoming-features
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Sebastien Besson - Breaking builds job
- “Breaking” Pipeline has Andrew’s Channel int to float, Ola’s minified js
- “Breaking” labelled PRs not included in merge builds, but are included in ‘breaking’ jobs.
- Once one build has passed and gone into merge build, next PR can be built.
- Andrew - currently chasing down bugs with Channel int to float.
- Josh - focus on model changes for 5.1.0.
- Andrew - few model changes ready to go: Map annot, timestamp, etc. Should be OK
- Jason - need to get model changes done well before 5.1.0
- Heads-up about folks away.
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5.0.1 status
Glencoe Update
- Chris - Several installs of OMERO in restricted corporate environment. timeout issues etc. Proxy info for docs.
- Emil - Dataset to Plate script extended with more features.
- Andreas - Tagging work moving towards open-source (end of week).
- JB - Heap overflows fixes on search indexing - number of files too large. Big files not fixed yet (for Ola).
Consortium Update
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Curtis - good progress on ImageJ-OMERO tickets etc. Milestones organised etc. Github issues
- prepping e-mails to ImageJ, ome lists.
- tables prototype working
- Jason - well done on Projects release last week
- Ian - Windows builds causing problems.
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Curtis - good progress on ImageJ-OMERO tickets etc. Milestones organised etc. Github issues
Upcoming meetings/conferences/outreach visits
- Petr & JM in Toronto
- Big Data keystone in SF next week (Jason, Josh, Douglas)
- BigData poster feedback, last call
- Paris meeting - last call for speaker suggestions
- Gus at CLS symposium in Crieff this weekend
- Simon at Data-Viz meeting (UofD). UX testing facility at CTIR.
Presentation by Graeme Ball "Introduction, Tools, Feedback, Plans"
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Jason: Graeme is “Image Analyst” - from Oxford.
- This role has become important at various institutions
- Need to encourage communication between institutions
- Graeme…
- Image Analyst role - see Nature methods
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Knowlege of Tools:
- ImageJ - ubiquitous, macros, open any images
- Matlab - concise sytax, built-in analysis tools etc. E.g. tracking of particles, Microbes, etc
- OMERO! - scripts for batch analysis
- ImageJ pluigins: - SIMcheck.
- Been installing ImageJ, Fiji, Matlab on many machines
- Setting up booking system.
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Using OMERO:
- Scripts for de-noising. Handy for users with some data
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Python API:
- Docs have improved
- Ice complexity not well hidden
- BlitzGateway awkward, verbose to use etc
- Eventually found bits and pieces outside Blitz (webclient/container.py webclient_gateway.py, script_utils)
- OMERO is useful as repository, collaborative tool, batch processor etc.
- OMERO interface needs tidy - important tools more prominent (E.g. rdef settings)
- By default, in Dundee users are in “default” group
- Need to be easier for users to create groups (don’t want to go via Admin)
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Heavy lifting (processing) needs to run on separate machine
- Blazej - hard to get ICE to work & be reliable, poor docs etc.
- Douglas - set up will be complete in Oxford soon
- Search not working!
- Notifications within OMERO - E.g. comments etc. needed for collaborative working
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Let web and Insight diverge
- web for collaborative, admin, jobs
- Insight for Desktop integration, IJ, sync
- Fiji update site?
- Getting images from OMERO to processing and results back to OMERO is hard
- Sharing, creating groups etc - lots of discussion of tech and social issues.
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Jason: Graeme is “Image Analyst” - from Oxford.
Any other business (<5 mins)
- Chairs
- Please say if test chair is not suitable.
- DO NOT take your blue chair with you!
- Each desk will have 2-drawer filing cabinet
- Video walls (notice boards later)
- 2 walls with mountings & power for monitors.
- Do we want to put monitors here? What would we put on them?
- Concerns about distraction. Could put non-moving content, but possibly not justified cost
- Might be useful for meetings etc. But might be better to have monitors in meeting rooms (instead of projectors)
- https://docs.google.com/a/glencoesoftware.com/document/d/1It7llRB7alAt0SbNN6zAjI3-myGpxuh1crnMVEsPnqQ/edit