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"Warning: Recycling array of length 1 in vector-array arithmetic is deprecated" #132
Description
I am using QDNAseq to do some CNA analysis (and loving it - thank you!)
I've got a custom dataset and I'm running into an error that I assume is a deprecation one. When I call QDNAseq::callBins() on my data, I get a warning raised repeatedly that
Warning: Recycling array of length 1 in vector-array arithmetic is deprecated. Use c() or as.vector() instead.
Is this a known issue of the package? Or is it possibly something weird in my data?
I've been sent copy number data without calls and I'm trying to use the package to process it without the raw .BAM files so I have been quite well-acquainted with strange warnings.
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HenrikBengtsson commentedon Mar 21, 2025
Yes, this is known and its coming from the CGHcall package. From
news(package = "QDNAseq");QDNAseq/NEWS.md
Lines 181 to 186 in c07ae77
I created a CGHcall issue (tgac-vumc/CGHcall#2) many moons ago. They're the ones that have to fix this. At the moment I think these warnings are harmless, but the day these warnings are escalated to errors in base R, which is what reports on this, things will break.