2011-07-12 Tuesday Meeting
Attending: Brian, Ola, Scott, Will, Andrew, Chris, Colin, Simon, Melissa, Curtis, Jason, Carlos
Agenda
Remember: Agenda must be complete (with estimated times) on the day before the meeting. Any additions after that must go at the bottom (AOCB)
Accepting minutes from last meeting
Matters Arising (<10 mins)
- Put in action points and PENDING items from last Thursday's meeting.
- Andrew: Email about OME-TIFF exports in Imaris. [DONE] (Chris)
- Chris: Email about exporting JPEG [DONE]
- JMB: Ticket mporters bug issues (+others)
- Andrew: add significant bits per pixel element to XML
Milestone planning
- OMERO-Beta4.3.2 milestone
- Tuesday presentation schedule? (August 16th?; OMERO.fs)
OME Model Work over the Summer: Andrew's presentation (15 mins)
Any other business (<5 mins)
In Attendance
Brian, Ola, Scott, Will, Andrew, Chris, Colin, Simon, Melissa, Curtis, Jason, Carlos
Notes
Accepting minutes from last meeting
- Approved
Matters Arising (<10 mins)
-
Andrew: Email about OME-TIFF exports in Imaris. [DONE] (Chris)
- User is aware that its an Imaris bug.
-
Chris: Email about exporting JPEG - [DONE]
- User has been emailed, but this still needs testing
-
JMB: Ticket mporters bug issues (+others) - DONE
- Won't be looked at till JMB returns from vacation
-
Andrew: add significant bits per pixel element to XML - PARTLY DONE
- Still needs some tweaks to be put in the right place
-
Andrew: Email about OME-TIFF exports in Imaris. [DONE] (Chris)
Milestone planning
-
OMERO-Beta4.3.2 milestone
-
6230 covers proposed Jpeg2000 changes
- OMERO.web: planned to add running scripts. SPW changes, tree improvements, thumbnail improvements, big file fixes
-
Scott: Is testing built into this schedule?
- Chris: Andrews model, documentation, bio-formats should. Permissions shouldn't doesn't need testing.
-
Model changes in 4.3.2?
- Andrew: bits per pixel? Chris: Just having it in model is not that useful, needs client/server exposure
- Chris: Don't see a point to add this without full implimentation
-
Jason: What we should really be doing here is allowing the spec for the specific camera to be set
- This is very camera specific
- Has to be determined by analysing the data
-
Chris: Just adding bitperpixel from bio-formats so its an api call then this gets much easier
- Jason: This is an attribute of the camera and should go under detectors
- Chris: Does mean a new schema release. Should be a minor optional non-breaking attribute
- Does mean new database upgrade though
-
-
Tuesday presentation schedule? (August 16th?; OMERO.fs)
- Only meeting where we have enough people around for this meeting
- Have some synconization meetings planned to update missing folks
- See ticket #909 for full story
-
OMERO-Beta4.3.2 milestone
OME Model Work over the Summer: Andrew's presentation (15 mins)
-
Whats happened with OME model before September
-
Valication/Tests
- Curtis: Bio-formats validator crashing as well, maybe larger issue
- Will put a notice up temporarily while this is being fixed
-
Jason: Do we want to just tell people to use bio-formats?
- Andrew: That's one way to go
- Exmample Files
-
Documentation
- close ome-xml.org
- create ome data model resource
-
curtis: concerned about removing ome-xml.org. Might be better to keep it.
- Andrew: a lot of out dated information on that site
-
Jason: We need a single resource for this information
- Need definitive defition of the schema
- Need definitive validator
-
Model Additions
- Need way for folks to write data
- Now thinking of extensions at the top level for new data types (HIC, EM, SPIM, etc)
- Build would have extensions added by command line during build process
-
n-dim stored as Z+modulus
- Needs test implimentation
- DImension order needs to be addressed or there will be issues with this method
- Proposed extensions need more thought
- Curtis: May also want to consider breaking out a non-microscopy centric core from the schema as well
- Jason: No matter what, some stop gap is probably acceptable while we solidify our plan
- Jason: For now we put together an EM 'structured annotation' + custom client
-
Valication/Tests
-
Whats happened with OME model before September
Any other business (<5 mins)
- New paper should go out today/tomorrow.
Action Items
* Jason: Write to mark about bits-per-pixel proposed changes