2008-07-10 Project-wide 3:45 BST
Attending: Andrew, Brian, Catriona, Jean-Marie, Alexa, Donald, Jean-Marie, Melissa, Curtis
Agenda
- Sharing (Josh)
- Status
- Best way to share sharing.
- SPW
- Status
Notes
- website
- "awesome"
- any issues?
- not that Andrew's aware of
- blog got mapped in a bit late
- movies in AVI format: sound doesn't work on some people's machines
- worked for Andrew under parallels / flip4mac
- complete range: no sound ... cracking/hissing ... speeded up ... no video but sound
- codecs! (compressed with Windows Media 7, standard settings)
- VLC ok. Quicktime under Flip4mac. Media player under Win.
- Everyone who had problem please send configuration. There shouldn't be a problem.
- Ola will try to find out why.
- Brian/Will: ok.
- Not a parallels problem
- Did anyone check under a real Windows install?
- Yes.
- formats
- 3 new formats in the last week: MINC-MRI, Olympus APL, TillVision
- release 1.5 weeks ago; now fixing bugs
- [http://twitter.com/bioformats]]
- memory leak in matlab (Gaudenz)
- replied to his email
- contact at mathworks
- tested locally. no problems. (r14sp2)
- sharing
- Josh will write up on trac, and send a link
- fairly limited "smarts" — have to add all items (Image->Pixels->Channel->...)
- hcs
- wellsample in workable state
- one or two little kinks; importer looks ok, look into insight
- Jean-Marie: wellsample is now connected to correct well?
- Doesn't seem to be working. Sent screenshot.
- other than wellsample issue, insight can now display the entire plate
- lots of wells have nothing (only black with "no-image" message)
- can link screens to plates, etc. can annotate plates/screens/...
- discussion with andrew
- adding parameter to column/row how they are named
- perhaps just a display setting
- "D7" or "4/7"
- would possibly help acceptance of the tool
- Jason: fall under rubrik "need more information"?
- Andrew: will we be getting offsets? A plate which starts at 43X47 (extension of other plate).
- Jean-Marie: Not a decision to make right now.
- Jason: Very local expectations?
- Cat: Can look into it.
- Jason: dedicated ourselves to tackling metadata problem.
- places have defined models that they are using (existing workflow)
- largely fixed, no interest in changing them
- adapting to them is a big challenge
- will try to raise question at an upcoming mtg.
- important to handle correctly
- balance between acceptance and how much we can do
- reference sites?
- doing that for 5 years with varied results
- new efforts on the hcs front
- client mtg
- list of priorities over 4-5 weeks. metadata issue
- creative with conversations because of vacations, etc.
- open call for metadata questions the devs want answered
- will
- making fairly significant changes
- moving more toward insight model
- curtis
- switching to components folder like in omero
- need integration with hudson
- loci-tools: bioformats & ome/omero
- plan for beginning of august
- hudson as our ivy repository
- roi
- andrew looking at making ROI structures. initial draft
- setup in file will not work in the database
- in two places in file
- shapes under <image><roi/></image>
- rendering/display settings: in structured annotations bit with link back to shape
- 1000 ROIs --> 1000 links to structured annotations table
- postgis? Still seems reasonable.
- timescale? don't know. but 9 month is reasonable. Before Beta4 for scripting.
- Andrew: doing ROI first because it provides nice example of structured annotations
- Jason: let's do 4-6 weeks and then start thinking seriously about this?
- Donald: Sept/Oct/Nov
- Andrew: Should be in Aug/Sep release
- beta3
- someone didn't understand having to go and get something and build