2015-10-06 Tuesday Team Meeting
Dundee: Kenny, Mark, Dominik, Gus, June, Jean-Marie, Simon, Simone, Will, Helen, Roger, Ola, Jason Remote: Sebastien B, Ian, David, Melissa, Josh M, Colin, Emil, Eleanor
Agenda - 2:30pm Start
Accepting minutes from last meeting
- accepted
Project Timelines (2-3 minutes each)
OMERO - 14:33 UK
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5.2.0
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Ola: opened PR to remove Django from OMERO release and have people install it with pip
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breaking change requiring extensive web client testing, will discuss with Petr next week
- Sebastien B: first try to get automated testing passing against it, integration and robot framework; will discuss
- maybe in future have OMERO run inside virtualenv
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breaking change requiring extensive web client testing, will discuss with Petr next week
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Jean-Marie: managed to connect to server with Ice 3.6, still mapping issues to be resolved after IDR demo
- not aiming for official support for 5.2, but still need to get it solid
- Jean-Marie: jsTree, etc., all going to plan
- Sebastien B: m1 now tagged, explained in previous e-mail, jsTree work could be demoed
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Ola: opened PR to remove Django from OMERO release and have people install it with pip
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Regions v2 (Josh M)
- Josh M: probably kicking off again next week
- Roger: has work currently blocked on Mark’s PR
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5.2.0
Bio-Formats - 14:41 UK
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Java
- Melissa: on schedule for 5.1.5 next week
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C++
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Roger: 5.1.4 released today, announced on mailing lists, moderation willing
- further super-build work coming in 5.1.5
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Roger: 5.1.4 released today, announced on mailing lists, moderation willing
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Datasets / New formats
- Josh M: IDR work was affected by known issues
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Java
Glencoe Update - 14:42 UK
- Jason: imminent webinar
- Emil: starting to move deployments to 5.1.4
- Emil: working on digital pathology file formats
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Jason: “OME-HDF” interest growing, will need thought
- actually now seeing real-world data that is relevant
- Jean-Marie: interesting to compare with other containers
Repositories - 14:48 UK
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Virtual Microscope/teaching
- Ola: 5.1.4 upgrade done
- Sebastien: plans in Edinburgh to use OMERO in teaching
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IDR Project
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Josh M: yesterday’s testing had problems, probably mostly caching issues
- need to increase our experience of large datasets
- Josh M: punted on a few datasets, and a few are partially imported, still good to have all the data in one place
- Jean-Marie: no big crashes
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Josh M: yesterday’s testing had problems, probably mostly caching issues
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Virtual Microscope/teaching
FLIMfit/OPT (Ian) - 14:53 UK
- local server upgrade
Other consortium timelines (5 minutes) - 14:54 UK
- none
AOB (5 mins max - technical discussions should be highlighted to relevant people and rescheduled) - 14:54 UK
- Send out email reminder with meeting URL
- Jean-Marie: will e-mail nightshade-support with workaround to black thumbnail problem
- June: Seeing is Believing is this week, Mark is away next week
- Jason: OSAR meetings are being scheduled
- Jean-Marie: running workshop / drop-in sessions locally
5.2.0-m1 Demo and discussion of next steps (Will) - 14:57 UK
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with new jsTree work, data transferred in JSON then turned to HTML in JavaScript
- required extensive changes as much code is driven by the tree
- JSON APIs not really exposed, but web client uses them to query server more efficiently
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new PR is corresponding work for center panel, populating it from the data in the tree instead of separate queries
- yet existing functionality retained
- do need the sizes to specify dimensions of zoomed thumbnail, so that is slightly more loaded into the tree than it needs
- tree data also now includes thumbnail versions, for detecting when to show new rendering settings
- still a little more work on queries arising from collaboration with Douglas (HMS)
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Jean-Marie: also right-hand panel needs redesign for IDR
- Jean-Marie: some good performance work already done
- Gus: plan is to change right-hand panel so data is loaded on demand (e.g., expand the collapsed section) instead of eagerly
- Jean-Marie: many people do not much look at the right panel, they use filtering instead
- comments welcome
- Jean-Marie: considering API for listing ROIs in containers, question of how people may want to navigate them; also annotations on ROIs
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Jason: ROI folders/containers come up a lot
- Jean-Marie: e.g., ROIs divided into sets according to stage of instructional course
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with new jsTree work, data transferred in JSON then turned to HTML in JavaScript
Done 15:19 UK