Funcotator cannot read integer value for start/end position

[chstubbe]

GATK version: GATK/4.6.0.0

gatk command
gatk Funcotator
--variant $filtered_vcf_chr
--reference $reference_fasta
--ref-version hg19
--data-sources-path $funcotator_data_sources
--output $output_maf
--output-file-format MAF
--transcript-list ${output_dir}/exclude_transcripts.txt
--annotation-default normal_barcode:none
--lenient true
--disable-sequence-dictionary-validation true
--verbosity DEBUG

functotator version: funcotator_dataSources.v1.8.hg19.20230908s"

I get this error: A USER ERROR has occurred: Unknown file is malformed: Cannot read integer value for start/end position!
I know my vcf is okay. The code runs until chr3 and then stops at a random position. Could someone help me?

Thanks in advance!

Kind regards
Charlotte