Bioconductor/Biostrings

Error in .Call2("new_XStringSet_from_CHARACTER", class(x0), elementType(x0), : key 50 (char '2') not in lookup table

safiqu opened this issue · 1 comments

safiqu commented

I am trying to use customised data base.

Code 👍
"tax <- addSpecies(seqtab.nochim, refFasta = "/srv/SP_Pro_acnes.fa")"

Error:
"Error in .Call2("new_XStringSet_from_CHARACTER", class(x0), elementType(x0), :
key 50 (char '2') not in lookup table"

My species fasta file looks like this:

ID001 Cutibacterium acnesA1
GTTGCACACCAGGGGGTCAACTTGGCGTCCTCAGTTCAAAATTGATTCAAACTAACAGTTCCATGTCGGGAAACAGCACCAGGAAGCTCGTGACAT
ID002 Cutibacterium acnesA10
GTTGCACACCAGGGGGTCAACTTGGCGTCCTCAGTTCAAAATTGATTCAAACTAACAGTTCCATGCCGGGAAACAGCACCAGGAAGCTCGTGACA

I did not get it what I need to improve in dada2 pipeline or fasta files

hpages commented

This is a question for the dada2 authors/maintainers and you should ask it on the Bioconductor support site. Make sure to: (1) tag your question properly, (2) provide a reproducible example (the above code is not), and (3) format your code properly (by putting it between ``` lines).

Thanks,
H.