[ome-users] ZVI time information

[Melissa Linkert]

Hi James,
The latest daily build of Bio-Formats (available at
http://loci.wisc.edu/ome/formats.html) should fix this problem.  If
timestamps are present in the file, they will be in the hashtable under the
key "Timestamp <n>", where <n> is the timepoint number indexed from 0.  Note
that this will only work for ZVI files - other formats store their
timestamps using different keys.

I don't how you are using Bio-Formats; if you are using it as a library
within your own application, then you should consider using the
MetadataStore API to retrieve timestamps.  Following is some example code:

MetadataStore store = MetadataTools.createOMEXMLMetadata();
ImageReader reader = new ImageReader();
reader.setMetadataStore(store);

reader.setId("/path/to/file");
MetadataRetrieve retrieve = (MetadataRetrieve) reader.getMetadataStore();

 // get the time when acquisition began, in "yyyy-MM-dd'T'HH:mm:ss" format
String creationDate = retrieve.getImageCreationDate(0);

for (int plane=0; plane<reader.getImageCount(); plane++) {
  // get the timestamp for this plane
  // this is the time in milliseconds since acquisition began
  Float timestamp = retrieve.getPlaneTimingDeltaT(0, 0, plane);
}

Please let us know if you have any other questions, or if the latest daily
build does not work for you.

Regards,
-Melissa

On Thu, May 22, 2008 at 12:22 PM, James Chen <james.chenn at gmail.com> wrote:

> Hello everyone,
> I'm having trouble pulling out time stamp information from a time lapsed
> series in the ZVI file from bio-formats. I've gone over the entire metadata
> hashtable but can't seem to find any link to it. Does anyone have any
> suggestions?
>
> Thanks,
> -James
>
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