Re: IMS files - open with duplicated file name

Posted by jmutterer on Dec 22, 2020; 11:49am
URL: http://imagej.273.s1.nabble.com/IMS-files-open-with-duplicated-file-name-tp5024292p5024293.html

Hi Jacqui,

You could save the following macro as "rename_ims_image.ijm" in the plugins
folder

t=getTitle();
rename(t.substring( 0,t.lastIndexOf(t.substring(0,t.indexOf(".ims")+4))-3));

And this will give you a "rename ims image" command in the plugins menu.
You can then call it from the menu, or using:
run("rename ims image");
in a script.


Jerome.



On Tue, 22 Dec 2020 at 06:11, Jacqueline Ross <[hidden email]>
wrote:

> Hi everyone,
>
> We have a MetaSystems VSlide slide-scanner that has an option to extract
> files as IMS (Imaris) format. I prefer to use this because it is a
> hierarchy system where you can choose the resolution level that you need
> for analysis without having to use the full resolution unless you need to.
>
> However, the file name is duplicated which makes things a bit tricky. Does
> anyone know how to fix this, e.g. is it something to do with the options I
> have selected for the Bioformats importer? It's the same for files that
> come directly from Imaris.
>
> I have attached the log file that has the title of the image listed and a
> snip of the image details at the top of the image window.
>
> Another option is for me to run a "rename" step that takes the additional
> characters out but I'm not sure how to do this...
>
> Any help would be much appreciated.
>
> Kind regards,
>
> Jacqui
>
> Jacqueline Ross
> Lead Technologist
> Optical Microscopy & Image Analysis
> Biomedical Imaging Research Unit (BIRU)
> School of Medical Sciences
> Faculty of Medical & Health Sciences
> The University of Auckland
> Private Bag 92019
> Auckland 1142, NEW ZEALAND
>
> Telephone: Ext 87438; DDI:  [phone]
>
> Website:    http://www.auckland.ac.nz/biru
>
>
>
>
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> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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