search

tseemann / prokka

:zap: :aquarius: Rapid prokaryotic genome annotation
822 stars 224 forks source link

format issue with gff files #584

Open khemlalnirmalkar opened 3 years ago

khemlalnirmalkar commented 3 years ago

Hi, I am a newbie to assembly-annotation work and recently i needed to run prokka twice for the same sets of samples but found a different head for gff files

  1. head of gff from first time

    gff-version 3

    sequence-region NODE_1_length_1061053_cov_8.413562 1 1061053

    sequence-region NODE_2_length_715344_cov_5.218381 1 715344

  2. head of gff from second run of same sample

    gff-version 3

    sequence-region gnl|X|CGFCCPGG_1 1 1061053

    sequence-region gnl|X|CGFCCPGG_2 1 715344

    I need the format like my first run Please may i know why its different? both times my script was the same prokka ${i}scaffolds.fasta --outdir prokka${i} --centre X --compliant --norrna --notrna --metagenome --cpus $(nproc)

Thanks, Khem