Re: File formats and pixel size

Posted by AAM71 on Jun 04, 2021; 1:02pm
URL: http://imagej.273.s1.nabble.com/File-formats-and-pixel-size-tp5024686p5024699.html

Thank you, Wayne! That is very useful trick! If there is a bug in Fiji that you mentioned, should I report it to Fiji team?


I thank Herbie, Giovanni and Gabriel for very useful insights into the internal working of ImageJ/Fiji!

I appreciate your help very much.

best regards,
Alex
________________________________
From: Wayne Rasband <[hidden email]>
Sent: 04 June 2021 04:42
To: [hidden email] <[hidden email]>
Subject: Re: File formats and pixel size

> On Jun 3, 2021, at 12:19 PM, Aleksandr Mironov <[hidden email]> wrote:
>
> Dear Herbie,
>
> ImageJ/Fiji are able to open both tiff and mrc file by using Bioformats plugin (Sorry, if I was unclear). But this method asks for several clicks through menu and involves search for the source folder (in file explorer). If you work with one file - it is fine. However, if you working on many files, then it mounts to a significant degree.
>
> I would prefer open the folder/folders with necessary files and drag/drop them directly into ImageJ/Fiji. But this mode results in wrong pixel size.

Bio-Formats will open images dragged and dropped on the ImageJ window when you enable “Use SCIFIO when opening files (BETA)” in Fiji's Edit>Options>Image2 dialog but there appears to be a bug that causes the image size of your test image to be set to 0.00x0.00 pixels. What does work is opening the Plugins>Bio-Formats>Bio-Formats Plugins Shortcuts Window and dragging and dropping files on it.

-wayne

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