phc-ingestion 0.8.35__py3-none-any.whl → 0.8.36__py3-none-any.whl

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Files changed (4) hide show
  1. ingestion/nextgen/util/interpretation.py +4 -3
  2. {phc_ingestion-0.8.35.dist-info → phc_ingestion-0.8.36.dist-info}/METADATA +1 -1
  3. {phc_ingestion-0.8.35.dist-info → phc_ingestion-0.8.36.dist-info}/RECORD +4 -4
  4. {phc_ingestion-0.8.35.dist-info → phc_ingestion-0.8.36.dist-info}/WHEEL +0 -0
ingestion/nextgen/util/interpretation.py CHANGED
@@ -18,11 +18,12 @@ def map_vendsig(vendsig: str) -> str:
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  """
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  Map vendor significance for short variants
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  """
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- if vendsig in ["Pathogenic"]:
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+ vendsig_lower = vendsig.lower()
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+ if vendsig_lower in ["pathogenic"]:
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  return "VENDSIG=Pathogenic"
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- elif vendsig in ["Likely Pathogenic", "LikelyPathogenic"]:
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+ elif vendsig_lower in ["likely pathogenic", "likelypathogenic"]:
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  return "VENDSIG=Likely pathogenic"
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- elif vendsig in ["VUS"]:
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+ elif vendsig_lower in ["vus"]:
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  return "VENDSIG=Uncertain significance"
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  else:
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  raise RuntimeError(f"Unable to map vendor significance: {vendsig}")
{phc_ingestion-0.8.35.dist-info → phc_ingestion-0.8.36.dist-info}/METADATA RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.1
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  Name: phc-ingestion
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- Version: 0.8.35
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+ Version: 0.8.36
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  Summary: Functions for LifeOmic PHC genomic ingestions
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  License: MIT
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  Author-email: LifeOmic Development <development@lifeomic.com>
{phc_ingestion-0.8.35.dist-info → phc_ingestion-0.8.36.dist-info}/RECORD RENAMED
@@ -31,7 +31,7 @@ ingestion/generic/utils.py,sha256=1MEIru7uq38IjUdL8lcHqDH0oTki9uWrz1f2e-pmRoU,28
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  ingestion/nextgen/__init__.py,sha256=7LQ-h_Bvc5P1QcHMdzsqi1Qm4fTJn04-ozar2ty9wSc,59
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  ingestion/nextgen/process.py,sha256=kDCnU685v7aqJ3i4HpFdb7HqgHRSBKqtYPpuyN7qWmM,3976
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  ingestion/nextgen/util/alteration_table.py,sha256=bvTrXEhIRye5BzSXjZEBy1AvXLZgG0rNkNt3e3rcvv0,6127
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- ingestion/nextgen/util/interpretation.py,sha256=tQ3qzAUwBzwK1tQzH9ujZk_VCQ2wP8HzSZY0fImJ5Wo,818
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+ ingestion/nextgen/util/interpretation.py,sha256=56wVk9j-w59gM-11iODXbKuUtZcEwe8zJQSXpjyCguw,872
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  ingestion/nextgen/util/manifest_helpers.py,sha256=2xrpEtHbCb1Kea1wJeObkDfTiBklmffQt_o2hMgOSOE,1208
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  ingestion/nextgen/util/nextgen_specific_genes.py,sha256=1jFcqvtYAlJ7eBwOBm1UC2TzAbjHjdlvPBUzxr1G8dY,1206
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  ingestion/nextgen/util/pre_filter_somatic_vcf.py,sha256=mIaUihmGLbS38D4Gy_Qtf1lFAfW0A-LgAgQmsrEiI-M,3529
@@ -54,6 +54,6 @@ ingestion/vcf_standardization/util/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQe
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  ingestion/vcf_standardization/util/af_helpers.py,sha256=dpTzoeIQVeBRt0ETF3a9rp5ojZqznHg4x_hCZ8OPcOg,1061
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  ingestion/vcf_standardization/util/dp_helpers.py,sha256=Nq8oLOLObu4_pv16qwwgpALRlUoJVCULrd9cFOD-eoI,823
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  ingestion/vcf_standardization/util/read_write.py,sha256=x3Pf6Dq8tmolblbCS5CrNmrcHS3FGfqBSFpFgvFGC4g,2526
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- phc_ingestion-0.8.35.dist-info/WHEEL,sha256=B19PGBCYhWaz2p_UjAoRVh767nYQfk14Sn4TpIZ-nfU,87
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- phc_ingestion-0.8.35.dist-info/METADATA,sha256=PctzE287ytgM7HHKcZO5VnMScgiX3bgpmgPNpF-ntWI,552
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- phc_ingestion-0.8.35.dist-info/RECORD,,
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+ phc_ingestion-0.8.36.dist-info/WHEEL,sha256=B19PGBCYhWaz2p_UjAoRVh767nYQfk14Sn4TpIZ-nfU,87
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+ phc_ingestion-0.8.36.dist-info/METADATA,sha256=Fe445KhsY-t71Eb7bJ67HuJB96Tl-8lvsS16x8UEJaw,552
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+ phc_ingestion-0.8.36.dist-info/RECORD,,