2015-09-15 Tuesday Team Meeting
Dundee: Petr, Kenny, Colin, Mark C, Gus, Simon, Jean-Marie, Simone, June, Will, Helen, Balaji, Chris Remote: Sebastien B, Josh M, Ian, Stick, Kelli, Eleanor, Melissa, Jason, David, Emil
Agenda - 2:30pm Start
Accepting minutes from last meeting
- accepted
Project Timelines (2-3 minutes each)
OMERO - 14:31 UK
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5.1.4 (Seb)
- done some cleanup, down to maybe twelve owned tickets critical or above
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on track for having PRs opened by next Monday, could release later next week
- Jean-Marie: Dominik may need some time early next week once he is back
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5.2.0 (J-M)
- merged jsTree
- Ola has been expanding Robot Framework testing to reduce manual testing burden
- next week discuss testing for Python 2.7, Ice 3.6 work
- Josh M: will approach some ROI work for 5.2.0 for JSON serialization by gateway of model objects
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Regions v2 (Josh)
- Josh: discussion this morning; next steps at the OMERO level
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Mark: initial schema change BF+OMERO PRs now open to test model change workflow
- currently on DEV breaking, though BF+OMERO now have their own regions branch with associated Docker CI jobs, so will move at some point
- figuring new workflow to get DEV schemas up at URL for XML validators
- not yet adjusted Bio-Formats to consume decoupled ome-xml component
- coming changes align OME-XML and OMERO ROI models and introduce ROI folders
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5.1.4 (Seb)
Bio-Formats - 14:37 UK
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Java (Melissa)
- no major 5.1.4 issues so progressing with 5.1.5
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C++
- to discuss with Roger when he returns
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Datasets / New formats
- no news
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Java (Melissa)
Glencoe Update (Chris) - 14:38 UK
- nothing to add to the above
Repositories - 14:38 UK
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Virtual Microscope/teaching
- Gus: positive feedback reported from workshop participants
- Jason: probably quiet at start of academic year
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IDR Project
- Eleanor: working to get datasets into demo server (105 plates in)
- Jason: trying to push a first public demo (draft release):
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Virtual Microscope/teaching
FLIMfit/OPT (Ian) - 14:41 UK
- I have reported Josh's thoughts on rebuilding Macroui to the ThunderSTORM board. To give them time to respond I have started work on a .spc FLIM Bio-Formats reader
Other consortium timelines (5 minutes) - 14:43 UK
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Petr: webtagging not working on 5.2, Douglas can probably easily fix
- Jean-Marie: check with Douglas after 5.1.4 is out
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Petr: webtagging not working on 5.2, Douglas can probably easily fix
AOB (5 mins max - technical discussions should be highlighted to relevant people and rescheduled) - 14:44 UK
- June: David Gault will be in Dundee from Monday afternoon to Friday afternoon
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June: IDR meeting at Dundee
- Jason: focused push over Tuesday, Wednesday especially to get more working, not a strategy meeting
- Jean-Marie: cancel this weekly team meeting for next week
Presentation by Sebastien on the Data Repo (structure, tests, future) - 14:47 UK
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Will: useful for search to import our data repository into OMERO
- Josh M: could revisit that as IDR hardware spins up
- Jean-Marie: issue with out-of-date metadata as readers change
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Jason: form of B-F tests are not in a form that everyone can read/parse and the actual data is private; still, given all the CI work on running BF tests on data repo, can information on the results be usefully shared with the community?
- Sebastien B: could perhaps offer more information on exactly what we know does work for specific formats? e.g., based on image files’ metadata / versions
- Jason: good to have clarity for users as to which kind of CZI file is broken
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Eleanor: where do new file formats come from? Do users submit broken files, do we chase vendors for information?
- Sebastien B: on the open-source side, mostly driven by the community
- Jason: historically has been slow and difficult to get complete, correct specifications/data from vendors, so data from users is invaluable; even with goodwill, bureaucratic process can be challenging
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Will: useful for search to import our data repository into OMERO
Done 15:22 UK