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Issues with images in Bioc 3.20 #9

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lmweber opened this issue Dec 19, 2024 · 1 comment
Open

Issues with images in Bioc 3.20 #9

lmweber opened this issue Dec 19, 2024 · 1 comment

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@lmweber
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lmweber commented Dec 19, 2024

Currently getting some errors related to images in Bioc version 3.20, possibly also related to new function containsOutOfMemoryData() from BiocGenerics. E.g. for Visium_humanDLPFC():

> containsOutOfMemoryData(spe)
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'object' in selecting a method for function 'containsOutOfMemoryData': no slot of name "metadata" for this object of class "LoadedSpatialImage"
> str(getImg(spe))
Formal class 'LoadedSpatialImage' [package "SpatialExperiment"] with 2 slots
  ..@ image: 'raster' chr [1:600, 1:600] "#aeb1b0ff" "#aeb2b0ff" "#adb1afff" "#adb1afff" ...
  ..@ NA   : NULL
Warning message:
Not a validObject(): no slot of name "metadata" for this object of class "LoadedSpatialImage" 
@lmweber
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lmweber commented Dec 19, 2024

Appears to be possible to fix by rebuilding objects from scratch using current Bioc version -- may need to rebuild and replace all existing EHub objects that have this issue

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