Problems with funannotate update

[DiegoSafian]

Are you using the latest release? funannotate 1.8.14

Describe the bug The funannotate update stops in "Quality trimmed reads" despite I used --no_trimmomatic

What command did you issue? funannotate update --fasta /camp/home/safiand/home/users/safiand/genome_annotation/turneri/GCA_922788865.1_HVK001PTURNERI_genomic.shortID.fna --species turneri_up \ --gff turneri_tsebr.gff3 \ --trinity trinity-GG.fasta \ --no_trimmomatic \ --left R1.fastq \ --right R2.fastq \ --pasa_db sqlite --cpus 32 \ --out update

Logfiles [01/11/23 09:09:53]: Trimmomatic will be skipped [01/11/23 09:09:53]: Quality trimmed reads: ('update/update_misc/left.fq.gz', 'update/update_misc/right.fq.gz', None) [01/11/23 09:09:53]: Trimmomatic failed, update/update_misc/left.fq.gz does not exist.

[DiegoSafian]

Solved!

[nextgenusfs]

Glad you got it sorted, might be helpful for others to post how you solved it.

[DiegoSafian]

The problem was solved by re-installed funnanotate usingconda install funannotateinsted of conda install -c bioconda funannotate