How does adapter.fasta work?

[akunln]

Hello,

I tried using fastplong to strip barcodes from long reads. I added all barcodes to a fasta file (adapter.fasta). Fastplong seems to ignore the --adapter_fasta as far as I could tell and still detects the adapter (here barcode+flanking sequences):
Command:
fastplong --in in.fastq.gz --out out.fastq.gz --adapter_fasta adapter.fasta ...

Terminal output:
Trying to detect adapter sequence at read start
Detected: AAGGTTAACACAAAGACACCGACAACTTTCTTCAGCACCT
Trying to detect adapter sequence at read end
Detected: AGGTGCTGAAGAAAGTTGTCGGTGTCTTTGTGTTAACCTTAGCAAT
...

Adapter.fasta:

NB01_Kit_NB96_front
CACAAAGACACCGACAACTTTCTTCAGCACCT
NB01_Kit_NB96_back
GGTGCTGAAGAAAGTTGTCGGTGTCTTTGTG
NB02_Kit_NB96_front
ACAGACGACTACAAACGGAATCGACAGCACCT
NB02_Kit_NB96_back
...

Also I would prefer if it would be possible to specify a fasta file for the -s and -e parameters so I could define multiple sequences per position. Using only the common flanking sequence in my case remove way to many bases.