2015-11-17 Tuesday Team Meeting
Dundee: Kenny, Petr, Dominik, Mark C, Gus, Will, Balaji, Simone, Jean-Marie, Roger, Graeme Remote: Sebastien B, Ian, Josh M, Colin, Curtis, Andreas, David, Melissa, Emil, Stick, Wilma
Agenda - 2:30pm Start
Accepting minutes from last meeting
- accepted
Project Timelines (2-3 minutes each)
OMERO - 14:30 UK
Bio-Formats - 14:32 UK
Registry (Sebastien) - 14:35 UK
- somewhat on backburner
- would like to use ansible to populate box and deploy
Glencoe Update (Emil) - 14:35 UK
- focusing on looming PathViewer release
-
working on map annotations attached to ROIs
- Jean-Marie: part of the marshaling work?
- Emil: yes
- Jean-Marie: anything to test yet?
- Emil: still early days
Repositories - 14:36 UK
-
Virtual Microscope/teaching
- Gus: nothing new, downtime will have to wait until next month
-
IDR Project
- Josh M: data going in, Jason has presentation coming, so try not to bring IDR down
-
Virtual Microscope/teaching
FLIMfit/OPT (Ian) - 14:37 UK
- plenty of bug reports
- progress on super-resolution
- looked at Alan Race’s spectroscopy data, open-source MATLAB tool can read it, still to get the data into an array so it can be converted to OME-TIFF
Other consortium timelines (5 minutes) - 14:39 UK
- nothing
Release, tagging, announcement policy - 14:39 UK
-
Sebastien B: issues are,
-
communicating milestones for OMERO.figure, etc., as we already do for Bio-Formats, OMERO
- good to know when production-ready code is needed
-
do we know when OMERO.figure 1.2.0 is to be released? how to structure testing, etc.?
- Will: was aiming for yesterday
- Jean-Marie: should have a release template Trello board, even if few cards as yet
- Will: already items listed on a release card
- Jean-Marie: board would be useful for tracking features against releases
-
communicating milestones for OMERO.figure, etc., as we already do for Bio-Formats, OMERO
- Wilma: it is possible Jason may be able to discuss on Friday, also away early next week
-
Petr: are we ever demoing features on tadpole that are not yet formally released?
- relevant especially for important features already well-tested
-
Josh M: my concern was that the deployment was of merge build at last minute
- Sebastien B: span up three RCs in four hours, suggesting quality of build was not sufficient
- Sebastien B: even for “unreleased” features, still need time to put it through enough of the release process for confidence in the build
-
Sebastien B: issues are,
R and OMERO (prototype) - presentation by Dominik - 14:53 UK
-
Roger: can you get the pixel data as a matrix?
- Dominik: yes
-
Roger: put convenience functions into a namespace?
- Dominik: would like to
-
Jean-Marie: people in SLS using R?
- Graeme: yes, probably analysis of spreadsheets generated from other software, rather than analyzing raw images
- Jean-Marie: Gateway board has an OMERO ↔ R card, comments welcome
-
Dominik: RStudio on the Mac expected old Java
- Roger/Curtis: homebrew?
- Graeme: that’s just R
- Roger: still got interactivity and graphics output though
-
Dominik: would be interesting to integrate R with OMERO.tables
- Roger: can also create data frames from PostgreSQL queries
- Jean-Marie: would be good to know how to generate CSV, etc. such that it is most usable from R
-
Josh M: could see someone wanting to run scripts in EBI cluster against IDR data
- would be great to get everybody laying their data out in a consistent way
-
Roger: can you get the pixel data as a matrix?
AOB (5 mins max - technical discussions should be highlighted to relevant people and rescheduled) - 15:18 UK
- nothing
Done 15:18 UK