AnnotateMyIDs Fatal error

error
featurecounts
annotatemyids
bug

#1

Hi, I’m trying to run annotatemyid on my featurecounts table. I put as input ID type Entrez, but a error occurs .
Fatal error: Exit code 1 ()
Error in scan(file = file, what = what, sep = sep, quote = quote, dec = dec, :
line 2 did not have 8 elements
Calls: read.table -> scan

Can anyone help me?

Thanks


how to replace these ID with official gene names?
#2

Hi - On the annotateMyIds tool form, try setting the option “File has header?” to “Yes”.


#3

Tried but nothing, same error.This is the first part of my table. !


#4

Ok, thanks for trying that. I ran a few tests, at different servers and using different versions of the tool – all fail in a similar way. I’m not sure why so will reply again once known.

To use the tool now, first run the tool Remove beginning of a file to remove the first line (header), then run the tool annotateMyIds. That worked in my tests, across servers and tool versions.

Appreciate the follow up – this was unexpected!


how to replace these ID with official gene names?
#5

Update: This was a bug. I opened a ticket for the correction here if interested: https://github.com/galaxyproject/tools-iuc/issues/2319

Until that is completed, continue to remove header lines from any inputs to this tool, no matter which server or tool version you may be using.


how to replace these ID with official gene names?
#6

Thank you very much!