[ome-devel] Tiff Writing with Bio-Formats

[Melissa Linkert]

Hi Grant,

[CC'ing the ome-devel mailing list, as that is the best place for this sort
of question]

I'm thinking about using Bio-Formats to save ome-tiff images during
> acquistion.  Would you recommend this?
> I'm wondering if the performance is adequate for this purpose, given the
> high frame-rates that are typical.
>

If you have all of the acquisition metadata in advance, then that should be
possible.  I would be a little surprised if performance is adequate for
saving directly during acquisition, but it really depends upon disk speed
and what you consider to be adequate.


> The folks at Micro-Manager wrote their own Tiff writer.  They use
> Bio-Formats to provide OME-Tiff metadata, but wrote their own Tiff
> writer.   Did you (or Mellisa) ever talk with them about this?
> Do you thinks the Bio-Formats OMETiffWriter is as fast, faster?


My understanding is that they used their own TIFF writer as it was already
in place (for the original Micro-Manager format), and is likely faster than
Bio-Formats' OME-TIFF writer.  However, I haven't actually profiled both
writers and compared the results.

Regards,
-Melissa

On Fri, Nov 16, 2012 at 3:34 PM, Grant B. Harris <gharris at mbl.edu> wrote:

>  Curtis, Melissa --
>
> I'm thinking about using Bio-Formats to save ome-tiff images during
> acquistion.  Would you recommend this?
> I'm wondering if the performance is adequate for this purpose, given the
> high frame-rates that are typical.
>
> The folks at Micro-Manager wrote their own Tiff writer.  They use
> Bio-Formats to provide OME-Tiff metadata, but wrote their own Tiff
> writer.   Did you (or Mellisa) ever talk with them about this?
> Do you thinks the Bio-Formats OMETiffWriter is as fast, faster?
>
> --
> Grant
>
>   Grant B. Harris
> Scientific Informatics Analyst, Cellular Dynamics Program
> Marine Biological Laboratory, Woods Hole, Mass. 02543
> gharris at mbl.edu [image: QRCode]
>
>
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