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

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1

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 Hands-on: Hands-on: 2: RNA-seq counts to genes / Transcriptomics) but I keep getting errors. is anyone know how to fix this issue?

Dataset Error Report

An error occurred while running the tool toolshed.g2.bx.psu.edu/repos/iuc/limma_voom/limma_voom/3.50.0+galaxy0 .

Details

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

Troubleshooting

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?

2

Hi @DRSEI,

could you share your history with me?

Regards

3

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: