Error in if (class(matCountData) == "SummarizedExperiment") { : the condition has length > 1

[rotemavr]

hey
My data set is a time series (10 time points) + M Vs F samples (batches) experiment.

i'm trying to run impulseDE2 case-control analysis and I get this error:
ImpulseDE2 for count data, v0.99.10

Process input

Error in if (class(matCountData) == "SummarizedExperiment") { :
the condition has length > 1
Timing stopped at: 0 0 0

my df-annotation file matches my matobservedcounts
my count table is scaled filtered and log2 transformed without any (0,NA, -inf) values
I'm not sure what is the "SummarizedExperiment" meaning and hoe to solve this.
please help
Rotem

[davidsebfischer]

Hi Rotem, on first glance it looks as if the matCountData you supplied was a list? https://stackoverflow.com/questions/14170778/interpreting-condition-has-length-1-warning-from-if-function. Alternatively it might be worth double-checking what type this object is before you input it to ImpulseDE2.

[michael-mazzucco]

I am having a similar problem when going through the tutorial using the lsSimulatedData.

[dswede43]

Yes, I get the exact same error when going through the tutorial.

[NailouZhang]

This may be caused by the different version of R. impulseDE2 can run well with R 4.0.5, but showing same errors with R version 4.2.1.

[svigneau]

I had the same problem and proposed a fix here.

[davidsebfischer]

Merged into master now!