TypeError: read_table() got an unexpected keyword argument 'squeeze'

[hans-vg]

squeeze was deprecated in Pandas 2.0. Is this pipeline still being updated?

Building DAG of jobs...
InputFunctionException in rule merge_variants in file strabisumus_2025_mito_methyl/dna-seq-gatk-variant-calling_github/workflow/rules/calling.smk, line 64:
Error:
  TypeError: read_table() got an unexpected keyword argument 'squeeze'
Wildcards:

Traceback:
  File "strabisumus_2025_mito_methyl/dna-seq-gatk-variant-calling_github/workflow/rules/calling.smk", line 67, in <lambda>
  File "strabisumus_2025_mito_methyl/dna-seq-gatk-variant-calling_github/workflow/rules/common.smk", line 44, in get_contigs (rule merge_variants, line 134, strabisumus_2025_mito_methyl/dna-seq-gatk-variant-calling_github/workflow/rules/calling.smk)

[dlaehnemann]

Nobody currently actively maintains this, but pull requests are always welcome.

If you would like to instead look for an actively maintained and supported variant calling workflow, check out this one:
https://snakemake.github.io/snakemake-workflow-catalog/?repo=snakemake-workflows/dna-seq-varlociraptor