three_prime_adapter parameter was null

[ray1919]

Description of the bug

I tested in v2.1.0 and current dev branch.

No matter I set protocol to qiaseq or three_prime_adapter to sepcific seq, the fastp did not use expected adater sequence.

When hard code the fastp --adapter-sequence to $params.three_prime_adapter, the error log showed the $params.three_prime_adapter variable is null.

I tried to debug it , but was puzzled. Hope you could help me.

Command used and terminal output

No response

Relevant files

No response

System information

Nextflow version 22.10.6
Hardware Cluster
Executor lsf
Container engine: Local
OS Linux centos
Version of nf-core/smrnaseq 2.1.0, dev

[apeltzer]

Should be fine in dev