Tiled Tiff

[Massimiliano Baldassarre]

Hi ImageJ enthusiasts !

I have a question about tiled tiff. We recently updated the software on the Liacor and the new version save the raw data as tiled TIFF. There is an option of exporting in "normal" TIFF. Unfortunately it does only in 8 bit (or RGB with 8bit/channel) so we lose a lot of information in the process.
I tried to download the "imageIO" plugin, but it does not seem to work with this files.
Does anyone have any advice? Is it so hard to write a macro/plugin to open tiled TIFF? For what I read (and understood) is just a different order in the bits and that order should be specified in the file header, am I wrong?

Thanks a lot

Max

[Melissa Linkert-2]

Hi Max,

> I have a question about tiled tiff. We recently updated the software on the Liacor and the new version save the raw data as tiled TIFF. There is an option of exporting in "normal" TIFF. Unfortunately it does only in 8 bit (or RGB with 8bit/channel) so we lose a lot of information in the process.
> I tried to download the "imageIO" plugin, but it does not seem to work with this files.
> Does anyone have any advice? Is it so hard to write a macro/plugin to open tiled TIFF? For what I read (and understood) is just a different order in the bits and that order should be specified in the file header, am I wrong?

You might try using Bio-Formats:

http://loci.wisc.edu/bio-formats/imagej

Regards,
-Melissa

On Fri, Feb 10, 2012 at 10:09:56AM -0500, Max Baldassarre wrote:
> Hi ImageJ enthusiasts !
>
> I have a question about tiled tiff. We recently updated the software on the Liacor and the new version save the raw data as tiled TIFF. There is an option of exporting in "normal" TIFF. Unfortunately it does only in 8 bit (or RGB with 8bit/channel) so we lose a lot of information in the process.
> I tried to download the "imageIO" plugin, but it does not seem to work with this files.
> Does anyone have any advice? Is it so hard to write a macro/plugin to open tiled TIFF? For what I read (and understood) is just a different order in the bits and that order should be specified in the file header, am I wrong?
>
> Thanks a lot
>
> Max

[Massimiliano Baldassarre]

Hi Melissa,

The Bio-Formats importer worked!


Thanks

[Unruh, Jay-2]

It is not so hard to read a tif, but it is very difficult to read all tifs.  The format specification is so loose that one can put almost anything in there.  For example, Zeiss .lsm files are really just tifs with an entire microscope configuration in the header.  In other words, if you really want to read tif just use the canned importers, but it is not that difficult to wade through the ImageJ code for a specific type to write your own.

Jay

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Max Baldassarre
Sent: Friday, February 10, 2012 9:10 AM
To: [hidden email]
Subject: Tiled Tiff

Hi ImageJ enthusiasts !

I have a question about tiled tiff. We recently updated the software on the Liacor and the new version save the raw data as tiled TIFF. There is an option of exporting in "normal" TIFF. Unfortunately it does only in 8 bit (or RGB with 8bit/channel) so we lose a lot of information in the process.
I tried to download the "imageIO" plugin, but it does not seem to work with this files.
Does anyone have any advice? Is it so hard to write a macro/plugin to open tiled TIFF? For what I read (and understood) is just a different order in the bits and that order should be specified in the file header, am I wrong?

Thanks a lot

Max