'logo_control_default' not found

[ritma001]

Hi there,

I am trying to create ED logo and I downloaded nucleotide sequences (shown below) from https://rdrr.io/bioc/Logolas/man/logomaker.html .

sequence <- c("CTATTGT", "CTCTTAT", "CTATTAA", "CTATTTA", "CTATTAT",
"CTTGAAT", "CTTAGAT", "CTATTAA", "CTATTTA", "CTATTAT",
"CTTTTAT", "CTATAGT", "CTATTTT", "CTTATAT", "CTATATT",
"CTCATTT", "CTTATTT", "CAATAGT", "CATTTGA", "CTCTTAT",
"CTATTAT", "CTTTTAT", "CTATAAT", "CTTAGGT",
"CTATTGT", "CTCATGT", "CTATAGT", "CTCGTTA",
"CTAGAAT", "CAATGGT")
logomaker(sequence, type = "EDlogo") however, did give me an error:
"Error in logomaker(sequence, type = "EDlogo") :
object 'logo_control_default' not found".

I try to use some sequences as logo_control and bg but, the error persists.
And, I could not find this incident mentioned online.
Can you give me a clue to such problem?

[kkdey]

Hi,

I think the error is due to the fact that type should be "EDLogo" instead of "EDlogo", try running this command

logomaker (sequence, type = "EDLogo")

I will place a condition in the function to safeguard against such syntax errors in future

[kkdey]

I have now added a check at the start of the logomaker function that can detect such syntax issues and give non-confusing error messages like the one you encountered. Hope this helps.

Thanks

Kushal

[ritma001]

That is indeed the typo. Thanks for a quick response and a change regarding error messages.

Best,

Wannisa