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knossos-project / knossos_cuber

Converts images into a KNOSSOS-readable format.
GNU General Public License v2.0
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converting 3D tif file to conf file #4

Closed sunglyoungKim closed 5 years ago

sunglyoungKim commented 5 years ago

Hello,

I am using ubuntu 18.04 and try to convert a 3D stacked tif file to conf file.

I have used the default config file but changed the boundary that fit into my image file.

The conversion works. However, the conf file is not in a stacked file or 3D file.

May I know what options should I give to get 3D stacked outcome?

Thank you

Optiligence commented 5 years ago

The knossos_cuber in it’s current state doesn’t support cubing 3d tiffs directly. Is it much effort for you to convert it to a stack of 2d tiffs first?

sunglyoungKim commented 5 years ago

Hello,

Thank you so much a quick response.

So, basically, I need to convert from 3d tiffs to bunch of 2d tiffs files in the same directory.

And run the cuber?

I am usualy working in 3D dataset so I haven't used with a stack of 2d tiffs. However, I will try it

Thank you