Ticket #55 (closed enhancement: fixed)
Opened 2007-03-19T15:23:15-05:00
Last modified 2011-02-02T04:45:00-06:00
Support for Volocity format
| Reported by: | curtis | Owned by: | melissa |
|---|---|---|---|
| Priority: | major | Milestone: |
|
| Component: | bio-formats | Severity: | serious |
| Keywords: | Cc: | tjc@…, andrew.vaughan@…, alexander.tournier@… | |
| Blocked By: | Blocking: |
Description
There are several file types involved in the Volocity database structure, including .mvd2, .acff, .atsf, .aiix, .aisf, .dat, and possibly others. There is also a Volocity flavor of TIFF, with plain-text metadata in the header, that we should verify is parsed and converted correctly. See the readmes in data/volocity for more details.
Change History
comment:1 Changed 2007-04-19T10:10:20-05:00 by curtis
comment:2 Changed 2008-03-19T15:11:18-05:00 by curtis
- Priority changed from trivial to minor
- Severity set to serious
- Milestone set to bio-formats-m2
comment:3 Changed 2008-05-27T11:23:56-05:00 by melissa
- Cc tcollins@… added
- Priority changed from minor to major
comment:5 Changed 2009-03-11T16:58:50-05:00 by curtis
- Milestone bio-formats-m2 deleted
Milestone bio-formats-m2 deleted
comment:7 Changed 2010-05-06T08:29:03-05:00 by melissa
- Milestone changed from bio-formats-4.2 to bio-formats-5.0
comment:8 Changed 2010-09-06T15:15:09-05:00 by melissa
The .mvd2 files are Metakit databases ( http://www.equi4.com/metakit/), and pixels appear to be stored raw, with one file per channel per dataset.
Thus, there are two basic steps to implementing support for this format. The first is to come up with a way to read Metakit db's in Java, either by writing a wrapper for the existing C++ library or by writing a native Java library based on the file format documentation. The second step is to use the Metakit library to read the .mvd2 files, which (hopefully) contain linkages to the pixels/metadata files. The Metakit library should probably be a standalone library (i.e. not in loci.formats).
comment:12 Changed 2011-02-02T04:45:00-06:00 by curtis
- Status changed from new to closed
- Resolution set to fixed
moved to ome:#4083
Additional comment from (duplicate) ticket #3:
Several people, including Michael Schell, Jeremy Sanderson, Kurt De Vos and Johannes Schindelin, would benefit from direct support for Volocity's database format; Jeremy sent .acff files; Mike sent .mvd2 (Multi-file Library version 2), .atsf, .aiix, .aisf and .dat.