[SCIFIO] Block-wise writer

[Mark Hiner]

Hi Burkhard,

Argh, I think you are getting bit by a confusing naming choice in SCIFIO. A
"planar axis" in SCIFIO means its value contributes to the size of a plane,
not the number of planes. See the ImageMetadata javadoc[1] for a better
explanation.

So, if you have an XYZT dataset for example, and you set your planar axis
count to 4, the writer thinks it has one plane of size X * Y * Z * T (which
is why the warning says it only supports 1 plane in your case).

If you set the planar axis count to 2 in this case, you would have Z * T
number of planes, each of size X * Y.

If anything is still unclear about planar axes, just let me know. I'm happy
to look over code examples for your translator/writer, as well, and will
try to create better documentation on this subject[2].

Best,
Mark

[1]
http://javadoc.imagej.net/SCIFIO/io/scif/ImageMetadata.html#setPlanarAxisCount(int)
[2] https://github.com/scifio/scifio-tutorials/issues/2

On Thu, Jan 29, 2015 at 3:57 PM, Burkhard Hoeckendorf <
burkhard.hoeckendorf at web.de> wrote:

> Dear Mark,
>
> Its me again, this time I have a quick question about writing >2D blocks.
> For the format I mentioned in my previous mail, I have a metadata
> translator that sets the planar axis count to 3-5. I know that my writer
> implementation can handle that, but ImageJ won't let it. Instead, I get a
> message box saying "Source dataset contains: n planes, but writer format
> only supports: 1". Is there an easy way around this?
>
> Thanks,
> Burkhard
>
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