phc-ingestion 0.10.15__py3-none-any.whl → 0.10.16__py3-none-any.whl

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Files changed (4) hide show
  1. ingestion/foundation/util/vcf_etl.py +3 -0
  2. {phc_ingestion-0.10.15.dist-info → phc_ingestion-0.10.16.dist-info}/METADATA +1 -1
  3. {phc_ingestion-0.10.15.dist-info → phc_ingestion-0.10.16.dist-info}/RECORD +4 -4
  4. {phc_ingestion-0.10.15.dist-info → phc_ingestion-0.10.16.dist-info}/WHEEL +0 -0
ingestion/foundation/util/vcf_etl.py CHANGED
@@ -55,6 +55,9 @@ def get_xml_short_vars(xml_file: str, log):
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  xml_short_vars = xml_dict["rr:ResultsReport"]["rr:ResultsPayload"]["variant-report"][
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  "short-variants"
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  ]["short-variant"]
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+ except KeyError as e:
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+ log.info(f"Missing key in XML structure for short variants: {str(e)}")
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+ return vendsig_dict
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  except TypeError:
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  log.info("No short variants found in xml")
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  return vendsig_dict
{phc_ingestion-0.10.15.dist-info → phc_ingestion-0.10.16.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: 0.10.15
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+ Version: 0.10.16
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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-0.10.15.dist-info → phc_ingestion-0.10.16.dist-info}/RECORD RENAMED
@@ -22,7 +22,7 @@ ingestion/foundation/util/cnv.py,sha256=YSKCaOBhjZDNXth_GxC-50crDURpTNCMefoHo0uO
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  ingestion/foundation/util/fnv.py,sha256=-VstGsBKXM0duC-IpwUkektoTZ9yQUR0IQcDb1HibY0,5937
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  ingestion/foundation/util/ga4gh.py,sha256=2oCTR9kvV5EeGZlrR35MfMkNL3nbeJYO88fo0NDDmRo,11304
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  ingestion/foundation/util/interpretation.py,sha256=LVVUmMyD6Un1rIKXqiyQDUC6oIJUd8cU3I9YHD5fsXg,405
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- ingestion/foundation/util/vcf_etl.py,sha256=ZBrX1XGRz-ymLUEiVcjjqmPZPb-AfD9On8UkZJDa1Dk,2133
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+ ingestion/foundation/util/vcf_etl.py,sha256=GXV5JXswwdyHEEdPsM3Qq8tDPFkvZajrZn5chWgF53k,2266
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  ingestion/generic/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  ingestion/generic/process.py,sha256=ZaVnZ_gx9faDUsuresI1A0oCegTa-dPQT7DBFMeZGyY,1777
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  ingestion/generic/utils.py,sha256=1MEIru7uq38IjUdL8lcHqDH0oTki9uWrz1f2e-pmRoU,2814
@@ -59,6 +59,6 @@ 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-0.10.15.dist-info/WHEEL,sha256=B19PGBCYhWaz2p_UjAoRVh767nYQfk14Sn4TpIZ-nfU,87
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- phc_ingestion-0.10.15.dist-info/METADATA,sha256=WKlso7yXse4-3pnboF_klLG79ocyMFhai3l0HLZ0xHA,678
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- phc_ingestion-0.10.15.dist-info/RECORD,,
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+ phc_ingestion-0.10.16.dist-info/WHEEL,sha256=B19PGBCYhWaz2p_UjAoRVh767nYQfk14Sn4TpIZ-nfU,87
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+ phc_ingestion-0.10.16.dist-info/METADATA,sha256=93pAgQ-3MryemXhW8ucjSC0zGTcbq0tXciquL94S2tY,678
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+ phc_ingestion-0.10.16.dist-info/RECORD,,