2008-05-16 Omero Review Meeting
Attending: Andrew, Briwn, Chris, Colin, Jason, Jean-Marie, Josh, Melissa, Ola
Agenda
The background to this meeting: we are feature-frozen, have initiated user testing, and well into testing.
- Status Report
- Bio-Formats
- OMERO.server
- OMERO.insight
- OMERO.importer
- OMERO.editor
- OMERO-fs
- OMERO.web (nee OMERO.collaborate)
- OME-XML
- ome-xml 2008-2 update;
- Website
- General
- movie making- problems?
- Deployment and installation
Notes
- Jean-Marie/Annotations
- working with tag hierarchies
- need to make a servicevi
- no build for Michael because of working on tag-of-tags
- possibly later today
- @Chris might try on weekend to reproduce freeze on mage.
- Any changes to how accessing thumbnail? Still one at a time.
- Bioformats/melissa
- hcs. Coming. More data?
- Just SO big. (+10Gig, one plate) Generate a smaller one?
- Paul Andrews needs a solution, possible source of data.
- @Chris sends an email.
- @Brian gets more than one plate (3 plates?) from Michael and uploads it.
- Not on users.o.o.uk.
- Notice: some of the datasets have 100K+ files, each one huge.
- Lots of issues
- Tricky testing on real data
- other format requests
- more time fielding emails
- Q: Happy with the tranformations/xsd-fu? A: a few minor changes; will commit
- hcs. Coming. More data?
- server
- josh
- freeze hopefully gone
- tightening up loose ends; need to get script jobs into database. @Discuss with Donald
- chris
- fixed issues with bulk uploads
- documentation things in the install (trac: repository, upgrade information)
- time to try some mac os x upgrades
- Q(j-m): Looking into the search issue reported? A: Hopefully next week.
- tickets
- #903 got to get upgrade script tested
- @Chris sends test database
- @Josh writes
- @Chris tests
- Josh working on #940s
- #11 (projects) in a Beta3.1? #6 save movies from the projectsion StructuredAnnotation
- Want to download something for Powerpoint
- Is scripting the solution?
- Yes and No. Still has to be stored somewhere for the user to download.
- "backgroundy"
- technical: server should generate something for me to take
- an example of "you gave me this; then it's easy to give me that"
- compression --> movies --> ...
- people getting frustrated
- provide tools in ways to utilize our tech; keep as focused as possible
- need support for blitz in clients
- perhaps provide way to access matlab script inside server
- 4-6 months to put the rest of the components in piece
- push distro packaging
- #903 got to get upgrade script tested
- josh
- importer
- changes to OME-TIFF have gone in; can get working on that
- OME-TIFF-->HCS (a la gantt)
- command-line stuff. easier now with all the svn restructuring.
- @dealing with huge dataset issues on mac!
- deleting bioformats-omero? Not yet. Switching day or whatever.
- No changes made except for DO_SHA1 commented out
- insight
- worked out several bugs from Michael/Josh
- refresh synchronization and tag-of-tag is coming
- version for Monday
- localhost regex; probably not too important
- most of them should be fixable or are already addressed.
- lots at one time; but largely duplicates
- donald should be able to close several of the tickets already
- editor
- chris: discussion in heidelberg, lots of people are interested in attaching protocols, etc.
- trying out for biological protocol, less on microscope.
- jean-marie: @95% in protocols are also in tables
- need to target that to make it more flexible
- have to work out the rows&cols issue
- some want to build a template of what they want to search
- based on the type of microscopy that you are doing and build UI accordingly
- new movie from will of editor
- chris: discussion in heidelberg, lots of people are interested in attaching protocols, etc.
- OMERO.fs
- tickets are appearing!
- not too much
- @meeting with: chris, josh, colin, melissa
- Tuesday: 2:00BST
- extends bioformats RandomAccessStream to pull data directly out of OmeroFs
- setup in a particular way. Could be more flexible.
- looking at weblitz some
- use latest version of server
- will try to get built
- OmeroWeb
- Go, go, gadget, go
- cleaning of backend in weblitz
- customization planning
- Q: how much customization should be allowed? A: adding a new template?
- That's done. Django provides everything.
- For Dummies or for Programmers?
- For Programmers!
- Integrating for CSS at a particular site. Embedding in their environment?
- Effort on our side, to make it look more like their work?
- Portlets?
- Who's going to use it and how?
- Probably not. Focusing on solving problems of biologists.
- Was looking at scripting engine
- You define the whole script and recieve the HTML from the script.
- embeddable output.
- How to read from webclient, get a link to an image
- SOAP server?
- Don't think so. Let's talk.
- Andrew & all things XML
- OME-XML
- changes to schema going live, probably Monday
- X-Ray tomography
- description of what they are trying to collect
- possibly using our data model with custom attributes
- generating sample files to see how to fit data at different scopes
- down to the plane level
- images currently stored in proprietary database. People only taking away tiff files.
- allow remote access with OMERO
- need any help?
- access to OMERO server, since they don't have anything to import
- @dedicated demo server after release
- security? management?
- performance? In this case, that'd be a plus.
- vmware image as a compromise?
- movies as a compromise?
- www-dev
- hasn't changed largely
- lots of small annoyances
- kevin had issues with not being able to find things
- what's front and center? everything can't be top-level
- http://.../news?categories=partnership - Collection based on search term.
- content based on live search
- tabs:
- video+screenshots -> gallery
- file formats -> documentation
- another way (not tab) to get between OME-XML, OME, TRAC)
- file formats linking to www.ome-xml.org ?
- news & events to second position; about as last tab
- @screenshots are out-of-date; done post release
- also for mac and windows
- OMERO.insights --> OMERO.insight
- getting OME-Perl server, web client
- feedback fast please
- OME-XML