Re: Clear Bio-Formats 'split channels' in a macro

Posted by Jason Swedlow-2 on
URL: http://imagej.273.s1.nabble.com/Clear-Bio-Formats-split-channels-in-a-macro-tp5011146p5011185.html

Hi Glen-

Thanks for your email-- this might be a bug in Bio-Formats.  Can you
address this question the Bio-Formats developers at

http://www.openmicroscopy.org/community/

Cheers,

Jason


On Fri, Jan 9, 2015 at 1:40 AM, Glen MacDonald <[hidden email]>
wrote:

> Hello,
> I’ve encountered  the following behavior difference in calling Bio-formats
> manually versus from a macro. If someone runs Bio-Formats from the plugins
> menu and checks ‘split_channels’, that option is not cleared if
> subsequently Bio-formats is called from a macro that is not intended to
> split channels.
>
> for example, run from macro to split channels:
>  run(“Bio-Formats Importer”,”open=[bunchastuff] color_moded=Grayscale
> split_channels view=Hyperstack stack_order=default”); -> splits channels
>
> then  run from macro to NOT split channels:
>  run(“Bio-Formats Importer”,”open=[bunchastuff] color_moded=Grayscale
> view=Hyperstack stack_order=default”); -> does not split channels
>
> Now, open Bio-Formats from plugins menu, manually select ‘split channels’
> -> splits channels
>
> then run from macro to NOT split channels:
>  run(“Bio-Formats Importer”,”open=[bunchastuff] color_moded=Grayscale
> view=Hyperstack stack_order=default”); ->  still splits channels
>
> Is there a way around this?
>
> thanks,
>
> Glen MacDonald
>         Core for Communication Research
> Virginia Merrill Bloedel Hearing Research Center
>         Cellular Morphology Core
> Center on Human Development and Disability
> Box 357923
> University of Washington
> Seattle, WA 98195-7923  USA
> [phone]
> [hidden email]
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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