phc-ingestion 0.10.13__py3-none-any.whl → 0.10.14__py3-none-any.whl

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Files changed (4) hide show
  1. ingestion/nebula/manifest_assembler.py +3 -3
  2. {phc_ingestion-0.10.13.dist-info → phc_ingestion-0.10.14.dist-info}/METADATA +1 -1
  3. {phc_ingestion-0.10.13.dist-info → phc_ingestion-0.10.14.dist-info}/RECORD +4 -4
  4. {phc_ingestion-0.10.13.dist-info → phc_ingestion-0.10.14.dist-info}/WHEEL +0 -0
ingestion/nebula/manifest_assembler.py CHANGED
@@ -154,7 +154,7 @@ class ManifestAssembler:
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  except Exception as e:
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  return None
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- def __extract_report_date(self) -> dict[str, str]:
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+ def __extract_collection_date(self) -> dict[str, str]:
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  in_file = self.vcf_file_path
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  with gzip.open(in_file, "rt") if in_file.endswith(".gz") else open(in_file, "r") as f:
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  headers = read_headers(f)
@@ -173,7 +173,7 @@ class ManifestAssembler:
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  report_date = epoch_time or date_string
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  if report_date:
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  return {
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- "reportDate": report_date.astimezone(tz=timezone.utc)
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+ "collDate": report_date.astimezone(tz=timezone.utc)
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  .isoformat(timespec="milliseconds")
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  .replace("+00:00", "Z")
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  }
@@ -204,7 +204,7 @@ class ManifestAssembler:
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  return {
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  "name": "Nebula",
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  "indexedDate": datetime.now().strftime("%Y-%m-%d"),
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- **self.__extract_report_date(),
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+ **self.__extract_collection_date(),
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  "reference": "GRCh38",
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  "patientId": patient.get("id"),
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  "mrn": self.__extract_elation_mrn(patient),
{phc_ingestion-0.10.13.dist-info → phc_ingestion-0.10.14.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: 0.10.13
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+ Version: 0.10.14
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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-0.10.13.dist-info → phc_ingestion-0.10.14.dist-info}/RECORD RENAMED
@@ -28,7 +28,7 @@ ingestion/generic/process.py,sha256=ZaVnZ_gx9faDUsuresI1A0oCegTa-dPQT7DBFMeZGyY,
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  ingestion/generic/utils.py,sha256=1MEIru7uq38IjUdL8lcHqDH0oTki9uWrz1f2e-pmRoU,2814
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  ingestion/nebula/__init__.py,sha256=VauK-rup_N8ZXVohx3HYqHX_PE_WoPyMUhdv2R7al4o,45
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  ingestion/nebula/constants.py,sha256=thKqSwemdaAwAmKvF4FEVI9l1Ph5ergsnMlx6nWte7E,357
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- ingestion/nebula/manifest_assembler.py,sha256=4lVZGiUc8DBkxb2W6zWOoX3azJf0VUMWYC20-T7wDNA,7989
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+ ingestion/nebula/manifest_assembler.py,sha256=kcRSy6pixHkuVEK9QSoM-i6ZdLWMSYXw39eKGHvam34,7995
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  ingestion/nebula/process.py,sha256=N9OuipynGV_XgEL3nO5I_-di1tk9szOy8LqsyNTw0E0,2323
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  ingestion/nextgen/__init__.py,sha256=7LQ-h_Bvc5P1QcHMdzsqi1Qm4fTJn04-ozar2ty9wSc,59
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  ingestion/nextgen/process.py,sha256=5Z0RfclwTAYZruGDiLPutjPCYFh1DJpoWY9dnttghT4,3993
@@ -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-0.10.13.dist-info/WHEEL,sha256=B19PGBCYhWaz2p_UjAoRVh767nYQfk14Sn4TpIZ-nfU,87
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- phc_ingestion-0.10.13.dist-info/METADATA,sha256=7CQQcYy4OIzsmQ-0mv5ZiO1KV9npZF62M61s2633IS0,678
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- phc_ingestion-0.10.13.dist-info/RECORD,,
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+ phc_ingestion-0.10.14.dist-info/WHEEL,sha256=B19PGBCYhWaz2p_UjAoRVh767nYQfk14Sn4TpIZ-nfU,87
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+ phc_ingestion-0.10.14.dist-info/METADATA,sha256=eFtKLSIUt-CxYzOq3I9SsNeg_bb2jw6VByiE6mM0ZD8,678
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+ phc_ingestion-0.10.14.dist-info/RECORD,,