Krona is not finding the NCBI taxonomy IDs even after running updateTaxonomy.sh

Question

[ashenflower]

Hello guys,

I'm trying to build a plot using Krona on a kraken2 standard output, which is in the form:

C   3903005_A00721:137:HYCH3DSXX:1:1121:28284:36198 9606    151 0:71 9606:4 0:42

Using the command:

ktImportTaxonomy -s 2 -t 3 my_kraken_file -o output_file

It builds the plot correctly, but apparently it is unable to find some of the taxonomy IDs in the file, even if those IDs are present in the NCBI taxonomy browser and I already run the updateTaxonomy.sh several times.

This is what I get on one of my files:

 [ WARNING ]  The following taxonomy IDs were not found in the local database and were set to
            root (if they were recently added to NCBI, use updateTaxonomy.sh to update the local
            database): 120683 1385592 1653479 2721621 1264596 68202 2583375 1054037 1182571
            285570 1500843 2575373 1673076 2725416 2736602 319236 1546149 1418105 68210 2321108

Any suggestion?