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merenlab / anvio

An analysis and visualization platform for 'omics data
http://merenlab.org/software/anvio
GNU General Public License v3.0
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Config Error: Something is wrong. For each domain, there must be a single sinlge-copy core gene source. #1314

Closed sneupane04 closed 4 years ago

sneupane04 commented 4 years ago

Hi, I am using: Anvi'o version ...............................: esther (v6) Profile DB version ...........................: 31 Contigs DB version ...........................: 14 Pan DB version ...............................: 13 Genome data storage version ..................: 6 Auxiliary data storage version ...............: 2 Structure DB version .........................: 1

I am using example from http://merenlab.org/2017/06/07/phylogenomics/

But pangenomics is not being run and showing following error: anvi-gen-genomes-storage -e external-genomes.txt \

                     -o Salmonella-GENOMES.db

WARNING

None of your genomes seem to have any functional annotation. No biggie. Things will continue to work. But then your genomes have no functional annotation. SAD.

Internal genomes .............................: 0 have been initialized.
[10 Dec 19 23:20:12 Initializing external genomes] working on S_enterica_01

Config Error: Something is wrong. For each domain, there must be a single sinlge-copy core gene source.

What could be the reason? And please suggest me solving this.

Thank You

meren commented 4 years ago

Did you run anvi-run-hmms on each contigs database?

What is the output of this command when you run on one of the contigs databases described in external-genomes.txt?

anvi-delete-hmms -c SOMETHING-contigs.db --list