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hyattpd / Prodigal

Prodigal Gene Prediction Software
GNU General Public License v3.0
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Issue with output file content #99

Open soluna1 opened 1 year ago

soluna1 commented 1 year ago

Hello:

I'm running this command: prodigal -a data/trimmed_db/prod_query.faa -d data/trimmed_db/prod_query.fna -i data/raw/all_seqs.fna

Being the all_seqs.fna a standard fasta file

image

The issue occurs with the output file, where a "_1" is added to every seq name:

1091141140636_1 # 1 # 810 # 1 # ID=1_1;partial=11;start_type=Edge;rbs_motif=None;rbs_spacer=None;gc_cont=0.585 GGGCGCATTGGTAACGCACAAATTGGTCCCATTTATTTGGGCACGTTGGGCGTCGCCTCTCTGCTGTTCG GTATCGCGGCGTTCAACATCATTGGTTTCAACATGTTGGCCTCGGTTGATTGGGACCCGATTCAACTGAT CCGTCAGCTGTTTTGGTTAGCTCTAGAACCGCCAGCCCCAGCCTATGGCCTGGGTTTCCCTCCCCTTGAA

Is there a way to avoid this from happening?

Thanks a lot!!

priscillaisaac98 commented 1 year ago

Hi, may I know how you managed to solve this? If I'm not going to use metatdenovo software but Prodigal standalone itself.