Hello, I encountered this issue while using avp prepare, which may be due to a configuration error in the config. yaml file.
[+] Setting up
[!] Selected 60 HGT candidates
[+] Parsing hits file and grouping similar queries
[!] Formed 50 groups
[+] Extracting hits from DB
custom is not a valid mode
We used the nr.fasta format file and conducted a blastx comparison with Diamond. How should we set up this config. yaml file.Here are my settings:
# DB path
blast_db_path: nr # blast: change to the local blast_db path
fasta_path: /home/data/nr/nr.fasta #diamond: change to the local fasta path for sp, ur90, or custom database
mode: custom # use blast for blast database, use sp for swissprot database, ur90 for uniref90 or custom database
data_type: DNA # data type DNA, AA
Thank you for your answer!!!
Hello, I encountered this issue while using avp prepare, which may be due to a configuration error in the config. yaml file.
[+] Setting up
[!] Selected 60 HGT candidates
[+] Parsing hits file and grouping similar queries
[!] Formed 50 groups
[+] Extracting hits from DB
custom is not a valid mode
We used the nr.fasta format file and conducted a blastx comparison with Diamond. How should we set up this config. yaml file.Here are my settings:
# DB path
blast_db_path: nr # blast: change to the local blast_db path
fasta_path: /home/data/nr/nr.fasta #diamond: change to the local fasta path for sp, ur90, or custom database
mode: custom # use blast for blast database, use sp for swissprot database, ur90 for uniref90 or custom database
data_type: DNA # data type DNA, AA
Thank you for your answer!!!