For COI missing .fasta.properties files
For COI only the midori database is working for Frogs (blast assignment of OTUs after swarm). I think the problem is the missing .fasta.properties files in the other folders. Could you please include that for the Corenucleotide Genbank references.
Or, change the affiliation_OTU_identite_couverture.py. Based on line 78 ff, only RDP formated blast databases seem to work. At least this is the issue having with 18SV silva databases in the same step.
And it would be awesome if you would have time to update the version of this Corenucleotide database (it is over two years old). But I understand that this is not a priority.
to see my error
CalledProcessError: Command 'taskset -c 17 java -Xmx100g -jar /appli/conda-env/bioinfo/frogs-2.0.0/bin/classifier.jar classify -c 0.0 -t /home/ref-bioinfo/tools_data/frogs/COI_genbank_2017-12-19-animals/COI-Genbank_CoreNucleotide_2017-12-19.fasta.properties -o /home/datawork-mareedna/tests122019/2_operation/1_MOTU_tables/COI_babett/all_blast_genbank/COI/7_frogs/1580764594.99_3305_1580764594.99_3305_swarm_4_filters6.fasta_1.rdp /home/datawork-mareedna/tests122019/2_operation/1_MOTU_tables/COI_babett/all_blast_genbank/COI/7_frogs/1580764594.99_3305_swarm_4_filters6.fasta_1 > rdp.out' returned non-zero exit status 1 Process Process-1: ... Frogs Affiliation ERROR