WARNING: Cannot find AF field from INFO field in VCF file, now calculate AF from AC/AN. Segmentation fault

[changostraw]

I am new to demuxlet and running demuxlet as part of demuxafy within a container:

singularity exec --bind /project/rrg-gturecki/Sarah/multiplex_test_demuxify_run2_cecum_poolC/outs/raw_feature_bc_matrix Demuxafy.sif popscle dsc-pileup --sam multiplex_test_demuxify_run2_cecum_poolC/outs/possorted_genome_bam.bam --vcf header_sorted_corrected_combined_multiplex_test_genotypes.vcf --group-list multiplex_test_demuxify_run2_cecum_poolC/outs/raw_feature_bc_matrix/barcodes.tsv.gz --out /project/rrg-gturecki/Sarah/multiplex_test_demuxify_run2_cecum_poolC/demuxlet_pileup

I get this response:
[cramore dsc-pileup] -- Produce pileup of dsc-RNAseq

Copyright (c) 2009-2017 by Hyun Min Kang and Adrian Tan
Licensed under the Apache License v2.0 http://www.apache.org/licenses/

Available Options

The following parameters are available. Ones with "[]" are in effect:
Options for input SAM/BAM/CRAM : --sam [multiplex_test_demuxify_run2_cecum_poolC/outs/possorted_genome_bam.bam],
--tag-group [CB], --tag-UMI [UB],
--exclude-flag [1796]
Options for input VCF/BCF : --vcf [header_sorted_corrected_combined_multiplex_test_genotypes.vcf],
--sm, --sm-list
Output Options : --out [/project/rrg-gturecki/Sarah/multiplex_test_demuxify_run2_cecum_poolC/demuxlet_pileup],
--sam-verbose [1000000],
--vcf-verbose [10000], --skip-umi
SNP-overlapping Read filtering Options : --cap-BQ [40], --min-BQ [13],
--min-MQ [20], --min-TD,
--excl-flag [3844]
Cell/droplet filtering options : --group-list [multiplex_test_demuxify_run2_cecum_poolC/outs/raw_feature_bc_matrix/barcodes.tsv.gz],
--min-total, --min-uniq, --min-snp

Run with --help for more detailed help messages of each argument.

NOTICE [2022/05/30 09:33:04] - Finished loading 1051074 droplet/cell barcodes to consider
NOTICE [2022/05/30 09:33:04] - Initializing BCF reader..
NOTICE [2022/05/30 09:33:04] - Finished identifying 5 samples to load from VCF/BCF
NOTICE [2022/05/30 09:33:04] - Initializing SAM reader..
NOTICE [2022/05/30 09:33:04] - Identified 25 overlapping chromosomes between VCF and BAM
NOTICE [2022/05/30 09:33:04] - WARNING: Cannot find AF field from INFO field in VCF file, now calculate AF from AC/AN
Segmentation fault

There is no FATAL ERROR or specific problem identified or further explanation of what went wrong. Does anyone have any ideas of what the issue is?
thanks!

[changostraw]

I tried increasing memory allocation to 250G, but it doesn't help. Usually if there is a memory issue the cluster will say it was killed because it exceeded the memory allocated, so I think this is more likely to be a bug.

[changostraw]

Hi, I am still getting a general segmentation fault with no specific error. I have checked the vcf file and bam file and everything is in format agreement. I have increased memory. Has anyone else had this issue? I am not sure where to start as there is no specifics on where it is crashing.
Thanks!