Error while exporting GEOdataset ( Error in if (num_colors < 256) { : missing value where TRUE/FALSE needed)

Question

[firstorthopedicdoctor]

Dear colleagues, I am trying to export GEO data series using get GEO, however, when I use this command, I get the following error

gset <- getGEO("GSE4600", GSEMatrix =TRUE, getGPL=FALSE)

**Found 1 file(s)
GSE4600_series_matrix.txt.gz
Using locally cached version: C:\Users\AppData\Local\Temp\RtmpuI3VFM/GSE4600_series_matrix.txt.gz
Error in if (num_colors < 256) { : missing value where TRUE/FALSE needed**

How to solve this? I do not understand what is the error

Answer 1

[Mensur Dlakic]

This statement if (num_colors < 256) can be TRUE or FALSE only if num_colors is a number, because that number will make a statement go one way or the other. If num_colors is a non-number, say a string, the statement outcome will be undefined and therefore can't be evaluated.

In short, you need to find out what value is assigned to num_colors and make sure it is a number.

[firstorthopedicdoctor]

Thank you very much, After trying to figure it out, It turned out that Rstudio version was old and when I update it the error message was gone