Error messages while trying to do "Differential expression with limma-voom"

Hello Everyone,

I am very new to Galaxy. I managed to create a countdata ,factordata, annotate form the in house bulk-RNA dataset. now I am trying to do Specify Contrast(s) of interest (based on the 2: RNA-seq counts to genes) but I keep getting errors. is anyone know how to fix this issue?

Dataset Error Report

An error occurred while running the tool .


Execution resulted in the following messages:

Fatal error: Exit code 1 ()

Tool generated the following standard error:

Error in scan(file = file, what = what, sep = sep, quote = quote, dec = dec, : line 7944 did not have 5 elements Calls: read.table → scan Execution halted


There are a number of helpful resources to self diagnose and correct problems.
Start here: My job ended with an error. What can I do?


could you share your history with me?


Hi @gallardoalba @DRSEI

I’m guessing that the input count files either had a header and that option wasn’t checked on the tool form or the reverse. Hopefully this is resolved now :slight_smile: