longread_umi pacbio_pipeline

[AMA-cs]

Hi,

I have Pacbio CCS file (bam) where it's generated from the Pacbio subreads (adapters are removed already). Then I converted it to fastq file to run longread_umi pacbio_pipeline.
However, since the adapters are removed, I'm not sure how to provide the values for option -f -r? If I provide the primers sequence which are:

Clontech_5p
AAGCAGTGGTATCAACGCAGAGTACATGGG
NEB_Clontech_3p
GTACTCTGCGTTGATACCACTGCTT

I still get errors that -f and -r are required.

Is there a way to handle this using your pipeline?

Thank you