Unable to successfully run MToolBox using RSRS

[l0ka]

I tried to run MToolBox with the following config file:

mtdb_fasta=chrRSRS.fa hg19_fasta=hg19RSRS.fa mtdb=RSRS humandb=hg19RSRS input_type=bam ref=RSRS

But the last steps of the run failed:

##### GENERATING VCF OUTPUT... Reference sequence used for VCF: RSRS

##### PREDICTING HAPLOGROUPS AND ANNOTATING/PRIORITIZING VARIANTS...

Haplogroup predictions based on RSRS Phylotree build 17 Unable to compute haplogroup. ExitYour best results file is mt_classification_best_results.csv

Loading contig sequences from file PM18_case-contigs.fasta Unable to compute haplogroup. ExitYour best results file is mt_classification_best_results.csv

Loading contig sequences from file PM18_ctrl-contigs.fasta Parsing pathogenicity table... Parsing variability data... Parsing info about haplogroup-defining sites... Parsing info about haplogroup assignments... No annotation.csv found. Exit

If I run MToolBox leaving the default configuration, it works.

input_type=bam ref=RSRS

I've performed the default MToolBox installation.