phc-ingestion 0.10.2__py3-none-any.whl → 0.10.3__py3-none-any.whl

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Files changed (4) hide show
  1. ingestion/nebula/process.py +3 -1
  2. {phc_ingestion-0.10.2.dist-info → phc_ingestion-0.10.3.dist-info}/METADATA +1 -1
  3. {phc_ingestion-0.10.2.dist-info → phc_ingestion-0.10.3.dist-info}/RECORD +4 -4
  4. {phc_ingestion-0.10.2.dist-info → phc_ingestion-0.10.3.dist-info}/WHEEL +0 -0
ingestion/nebula/process.py CHANGED
@@ -28,6 +28,8 @@ def process(vcf_file, out_path, file_name, source_file_id):
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  )
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  # Add to manifest
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+ manifest["testType"] = "WGS-30x"
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+ manifest["reportID"] = case_id
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  manifest["sourceFileId"] = source_file_id
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  manifest["resources"] = [{"fileName": f".lifeomic/vcf-ingest/{case_id}/{base_vcf_file}"}]
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  manifest["files"] = [
@@ -44,7 +46,7 @@ def process(vcf_file, out_path, file_name, source_file_id):
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  case_metadata = {
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  "test_type": manifest["testType"],
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  "vcf_line_count": vcf_line_count,
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- "case_id": manifest["reportID"],
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+ "germline_case_id": manifest["reportID"],
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  "germline_genome_reference": genome_reference,
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  }
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{phc_ingestion-0.10.2.dist-info → phc_ingestion-0.10.3.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: 0.10.2
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+ Version: 0.10.3
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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-0.10.2.dist-info → phc_ingestion-0.10.3.dist-info}/RECORD RENAMED
@@ -27,7 +27,7 @@ ingestion/generic/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU
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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
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  ingestion/nebula/__init__.py,sha256=VauK-rup_N8ZXVohx3HYqHX_PE_WoPyMUhdv2R7al4o,45
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- ingestion/nebula/process.py,sha256=kIFhndcXFUICKMg4PfFhEsBxb_0oPkGPnpVNHhHFJ7k,1853
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+ ingestion/nebula/process.py,sha256=x0nip0-99iYIOMItaaduAsx-b0EXStdwm50EtFNdJLo,1942
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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
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  ingestion/nextgen/util/alteration_table.py,sha256=JTWBL1Fqj_pGsH5vwuVEnCUJle2wOBk6VYImHYCF9vg,6129
@@ -56,6 +56,6 @@ 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-0.10.2.dist-info/WHEEL,sha256=B19PGBCYhWaz2p_UjAoRVh767nYQfk14Sn4TpIZ-nfU,87
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- phc_ingestion-0.10.2.dist-info/METADATA,sha256=HuebNLig9ccPPhZrF9It2bxP7p4ZWf0LGiz_rt__1Zk,573
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- phc_ingestion-0.10.2.dist-info/RECORD,,
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+ phc_ingestion-0.10.3.dist-info/WHEEL,sha256=B19PGBCYhWaz2p_UjAoRVh767nYQfk14Sn4TpIZ-nfU,87
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+ phc_ingestion-0.10.3.dist-info/METADATA,sha256=BbHHrV-H3nYEQ1XGyYlonO2KRtUWkrGRgSTbtrlsnC4,573
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+ phc_ingestion-0.10.3.dist-info/RECORD,,