Question about std::runtime_error

[whyskyisgray]

Hello,

I've encountered the following error while running a program:

The input file used is the output from minigraph-cactus.

When I created the input VCF using only 3 genome sequences, the calling worked well. However, after adding 200 more genomes, I faced the following error

Can anyone help me resolve this issue?

Thank you.

$ pangenome singularity exec $programs/pangenie/container/pangenie.sif PanGenie -i 10-5.fastq -r $ref -v ./pangenome.vcf -l 31 -j 4 -t 4 -o 10-5 -s 10-5

program: PanGenie - genotyping and phasing based on kmer-counting and known haplotype sequences. author: Jana Ebler

Files and parameters used: -a 0 -c 0 -d 0 -e 3000000000 -g 0 -i 10-5.fastq -j 4 -k 31 -o 10-5 -p 0 -r ./cw_final.fasta -s 10-5 -t 4 -u 0 -v ./pangenome.vcf Determine allele sequences ... Found 11 chromosome(s) from the reference file. terminate called after throwing an instance of 'std::runtime_error' what(): VariantReader: number of paths is limited to 254 in current implementation. [1] 229709 abort (core dumped) singularity exec $programs/pangenie/container/pangenie.sif PanGenie -i -r -

[eblerjana]

Hi, as mentioned in the PanGenie README, the current implementation limits the panel size to 254 haplotypes. Currently the focus of PanGenie is whole genome haplotype-resolved assemblies of human genomes where the number of fully assembled haplotypes is still much smaller

[whyskyisgray]

Thank you for your kind answer!! Have a nice day!