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removed unused files and commented out code
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.gitignore

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@@ -1,8 +1,3 @@
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# *.vcf.gz
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# *.vcf.gz.tbi
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# *.bam
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# *.bai
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# mitylib files
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mitylib/__pycache__
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0000.vcf

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mitylib/util.py

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@@ -106,7 +106,6 @@ def vcf_get_mt_contig(cls, vcf: str):
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tuple: A tuple of contig name as a str and length as an int.
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"""
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r = pysam.VariantFile(vcf, "r")
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# r = pysam.VariantFile(vcf, "r", require_index=True)
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chroms = r.header.contigs
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mito_contig = set(["MT", "chrM"]).intersection(chroms)
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assert len(mito_contig) == 1

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