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SydneyBioX / spicyR

https://sydneybiox.github.io/spicyR/
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Verbose Parameter is Missing #41

Closed DarioS closed 2 months ago

DarioS commented 2 months ago

.format_data function expects verbose parameter to be provided but getPairwise function does not send it.

 pairsColocated <- getPairwise(IMC, sigma = 50, BPPARAM = MulticoreParam(16),
                                imageID = "ImageNumber", cellType = "description",
                                spatialCoordCols = c("Location_Center_X", "Location_Center_Y"))
Error in .format_data(cells, imageIDCol, cellTypeCol, spatialCoordCols) : 
  argument "verbose" is missing, with no default
> traceback()
2: .format_data(cells, imageIDCol, cellTypeCol, spatialCoordCols)
1: getPairwise(IMC, sigma = 50, BPPARAM = MulticoreParam(16), imageID = "ImageNumber", 
       cellType = "description", spatialCoordCols = c("Location_Center_X", 
           "Location_Center_Y"))
nick-robo commented 2 months ago

Thanks for pointing this out, this should be fixed in the next spicyR release