Ticket #55 (closed enhancement: fixed)

Opened 13 years ago

Last modified 9 years ago

Support for Volocity format

Reported by: curtis Owned by: melissa
Priority: major Milestone: bio-formats-5.0
Component: bio-formats Severity: serious
Keywords: Cc: tjc@…, andrew.vaughan@…, alexander.tournier@…
Blocked By: Blocking:


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 13 years ago by curtis

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.

comment:2 Changed 12 years ago by curtis

  • Priority changed from trivial to minor
  • Severity set to serious
  • Milestone set to bio-formats-m2

comment:3 Changed 12 years ago by melissa

  • Cc tcollins@… added
  • Priority changed from minor to major

comment:4 Changed 12 years ago by melissa

  • Cc andrew.vaughan@… added

comment:5 Changed 11 years ago by curtis

  • Milestone bio-formats-m2 deleted

Milestone bio-formats-m2 deleted

comment:6 Changed 10 years ago by melissa

  • Milestone set to bio-formats-4.2

comment:7 Changed 10 years ago by melissa

  • Milestone changed from bio-formats-4.2 to bio-formats-5.0

comment:8 Changed 10 years ago 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:9 Changed 9 years ago by melissa

  • Cc alexander.tournier@… added

comment:10 Changed 9 years ago by curtis

  • Cc tcollins@… removed

comment:11 Changed 9 years ago by curtis

  • Cc tjc@… added

comment:12 Changed 9 years ago by curtis

  • Status changed from new to closed
  • Resolution set to fixed

moved to  ome:#4083

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