Hide a channel in RenderedImageServer for RGB export

Ajay_Zalavadia · April 7, 2021, 3:27pm

I am trying to export an overlay of the measurement for quick quality control step using the RenderedImageServer. I am using the following example by @petebankhead

gist.github.com

https://gist.github.com/petebankhead/db1cbe7c4767fc0392ab5fa0606d397a

QuPath-Write rendered images.groovy

/**
 * Script to export a rendered (RGB) image in QuPath v0.2.0.
 *
 * This is much easier if the image is currently open in the viewer,
 * then see https://qupath.readthedocs.io/en/latest/docs/advanced/exporting_images.html
 *
 * The purpose of this script is to support batch processing (Run -> Run for project (without save)),
 * while using the current viewer settings.
 *
 * Note: This was written for v0.2.0 only. The process may change in later versions.

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As I understand the script gets the display setting from the current open image in the viewer. I have opened one image in the viewer and disabled (hide) one of the channel, when I use this script I still get all channels in the exported image.

My image type is set to FLUORESCENCE , 1920pxx1440px, and I want to hide the Channel 3, which is a phase image, in the exported image. How do I do that ?

Ajay_Zalavadia · April 7, 2021, 2:27pm

Nevermind, found .display(viewer.getImageDisplay())

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