{
  "description": "Public copy of the frozen issue #19 run. Only two text transformations were applied: exact private path-prefix substitution, and withholding the MFASS cohort's reference base in Pangolin's reference-mismatch message (regex in allele_redaction). No number, identifier or score changed. Checkpoints and step logs are not copied; raw originals and their hashes are retained on the local study disk.",
  "allele_redaction": {
    "pattern": "variant file \\(ref base: [ACGTNacgtn]+\\)",
    "replacement": "variant file (ref base: <withheld>)"
  },
  "substitution_tokens": {
    "$STUDY_DATA": "local directory, not published",
    "$REPO": "local directory, not published",
    "$MFASS_DATA": "local directory, not published"
  },
  "manifest_raw_sha256": "203567b9055ae1350a910e100c879cace9567411f4e57d932318feda1b0231dd",
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          "count": 1
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      "allele_redactions": 0
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      "transformation": "identical",
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      "allele_redactions": 0
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      "transformation": "cohort reference-base redaction",
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      "allele_redactions": 0
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      "transformation": "path substitution",
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          "to": "$STUDY_DATA",
          "count": 2
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      "allele_redactions": 0
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        },
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}