Re: File formats and pixel size

Posted by gnelson on
URL: http://imagej.273.s1.nabble.com/File-formats-and-pixel-size-tp5024686p5024696.html

Hi Aleksandr,

I wasn't aware there was a default mrc file reader as Giovanni points out, as I don't work with those.  However, if you have installed bioformats correctly, dragging a bioformats readable file onto the imagej toolbar will invoke the Bioformats plugin to open the file, meaning you don't have to navigate through a file system (apart from the fact you had to do that to get to the file to drag it in the first place!).  At least, this is how it operates on the versions of ImageJ and Fiji I have installed on linux, mac and windows systems.  You will still be asked how you would like bioformats to open the file however.  A simple batch script to convert all to tifs is the way round this.  If your scalings are all constant, you can even concatenate them all together so you only have to drag one tif after conversion!  So perhaps your question is one of how to write a batch file or use the batch process option in Imagej?

Glyn

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