batch for folders

[Soriano.Joaquim]

Hi there!

I have recorded a macro and I would like image j to run that macro in a group of different folders.

It means opening all the files in each folder and processing them (basically: there are individual images belonging to three different channels stacks,  I would like them to become a single RGB picture of the maximum projection). Ideally it would be nice if image j could automatically process an entire group of folders in batch mode.

By using the Process- Batch-Macro command, Image j runs my macro in all the files of a folder. That's the closest I could get. Does anyone know how to make this work?

Thank you very much in advance.

 

Joaquim Soriano Felipe.

Confocal Microscopy Unit

Spanish National Cancer Research Centre (CNIO)

Melchor Fernández Almagro,3, E-28029 Madrid, Spain

Phone  + 34 917 328 000, exts.: 3161, 3162. [hidden email] <mailto:[hidden email]>

 



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[Michael Doube]

Joaquim,

Check out the recursive batch process folders macro
http://rsb.info.nih.gov/ij/macros/BatchProcessFolders.txt

Michael

On 22/07/10 10:13, Soriano.Joaquim wrote:

> Hi there!
>
> I have recorded a macro and I would like image j to run that macro in a group of different folders.
>
> It means opening all the files in each folder and processing them (basically: there are individual images belonging to three different channels stacks,  I would like them to become a single RGB picture of the maximum projection). Ideally it would be nice if image j could automatically process an entire group of folders in batch mode.
>
> By using the Process- Batch-Macro command, Image j runs my macro in all the files of a folder. That's the closest I could get. Does anyone know how to make this work?
>
> Thank you very much in advance.
>
>
>
> Joaquim Soriano Felipe.
>
> Confocal Microscopy Unit
>
> Spanish National Cancer Research Centre (CNIO)
>
> Melchor Fernández Almagro,3, E-28029 Madrid, Spain
>
> Phone  + 34 917 328 000, exts.: 3161, 3162. [hidden email]<mailto:[hidden email]>
>
>
>
>
>
> **NOTA DE CONFIDENCIALIDAD** Este correo electrÿnico, y en su caso los ficheros adjuntos, pueden contener informaciÿn protegida para el uso exclusivo de su destinatario. Se prohÿbe la distribuciÿn, reproducciÿn o cualquier otro tipo de transmisiÿn por parte de otra persona que no sea el destinatario. Si usted recibe por error este correo, se ruega comunicarlo al remitente y borrar el mensaje recibido.
> **CONFIDENTIALITY NOTICE** This email communication and any attachments may contain confidential and privileged information for the sole use of the designated recipient named above. Distribution, reproduction or any other use of this transmission by any party other than the intended recipient is prohibited. If you are not the intended recipient please contact the sender and delete all copies.
>
>