Posted by
ctrueden on
May 10, 2017; 9:11pm
URL: http://imagej.273.s1.nabble.com/Bioformats-importer-in-macro-tp5018696p5018697.html
Hi Ed,
> Is there a parameter that will open all series?
Yes, the "Open all series" option.
This records to macro something like:
run("Bio-Formats", "open=" + myFile + " autoscale color_mode=Default
open_all_series rois_import=[ROI manager] view=Hyperstack
stack_order=XYCZT");
If you need to customize which series get opened in a dynamic way, you can
use the Bio-Formats Macro Extensions to get the number of series via
the Ext.getSeriesCount(seriesCount) command. From that, you could
concatenate a string variable in a loop to build up which series get
included.
Regards,
Curtis
--
Curtis Rueden
LOCI software architect -
https://loci.wisc.edu/softwareImageJ2 lead, Fiji maintainer -
https://imagej.net/User:RuedenDid you know ImageJ has a forum?
http://forum.imagej.net/On Wed, May 10, 2017 at 4:00 PM, Ed Siefker <
[hidden email]> wrote:
> I would like to import a multi scene .czi file into ImageJ with a macro.
> I can't predict the number of series in the file.
>
> When using the GUI there is a "select all" function. Looking at the
> macro recorder, it passes a parameter for each series. Since I can't
> predict the number of series, I can't pass a parameter for each.
>
> Is there a parameter that will open all series?
> -Ed
>
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> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>
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