marcopan
fc5fbe6b65
Thoth (tht) è il prodotto, PSD è il cliente. Nessun riferimento al contesto
clinico nel codice.
Rinomine:
- comando+package nsp→tht (dir nsp/→tht/, 46 import, pyproject entry point)
- gate nsp-gate.js→tht-gate.js (+ rewrite token, relayIfNspFails→relayIfThtFails)
- workspace chirone.{example,test}.yaml→tht.{example,test}.yaml (generici)
- env THOTH_→THT_ (19 var) + NSP_ stragglers (NSP_HARNESS_ROOT, NSP_SESSION)
- commenti/docstring chirone/psdwp3/policlinico neutralizzati ('the reference
implementation', 'the DWH')
Aggiunto [tool.setuptools.packages.find] include=['tht*'] (necessario: l'auto-
discovery rompeva con tht/ + workspaces/ come top-level multipli).
.env operatore aggiornato in-place (prefissi THT_, valori preservati, gitignored).
Verifica: pytest 109 passed, npm test 14 pass, tht phase meta --json OK, zero
residui nsp/THOTH_/NSP_/chirone nel package.
91 lines
2.1 KiB
Python
91 lines
2.1 KiB
Python
from datetime import datetime
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from pathlib import Path
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from typing import Self
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import yaml
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from pydantic import BaseModel, Field
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class _YamlModel(BaseModel):
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def to_yaml(self, path: Path) -> None:
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path.parent.mkdir(parents=True, exist_ok=True)
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data = self.model_dump(by_alias=True, mode="json", exclude_defaults=False)
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path.write_text(
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yaml.safe_dump(data, sort_keys=False, allow_unicode=True, width=120)
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)
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@classmethod
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def from_yaml(cls, path: Path) -> Self:
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raw = yaml.safe_load(path.read_text())
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return cls.model_validate(raw)
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class ColumnPhysical(BaseModel):
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type: str
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nullable: bool = True
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pk: bool = False
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default: str | None = None
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comment: str = ""
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examples: list[str] = []
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is_enum: bool = False
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eligible: bool = True
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eligibility_reason: str = ""
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class ForeignKey(BaseModel):
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columns: list[str]
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ref_table: str
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ref_columns: list[str]
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name: str = ""
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class Index(BaseModel):
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name: str
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columns: list[str]
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unique: bool = False
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primary: bool = False
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type: str = "btree"
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class TablePhysical(BaseModel):
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comment: str = ""
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row_count: int = 0 # stima da pg_class.reltuples
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columns: dict[str, ColumnPhysical] = {}
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foreign_keys: list[ForeignKey] = []
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indexes: list[Index] = []
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class PhysicalSchema(_YamlModel):
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database: str
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db_schema: str = Field(alias="schema")
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introspected_at: datetime
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tables: dict[str, TablePhysical] = {}
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model_config = {"populate_by_name": True}
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class ColumnAnnotation(BaseModel):
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description: str = ""
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synonyms: list[str] = []
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concepts: list[str] = []
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evidence: list[str] = []
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notes: str = ""
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eligible: bool | None = None
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class TableAnnotation(BaseModel):
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description: str = ""
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concepts: list[str] = []
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notes: str = ""
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columns: dict[str, ColumnAnnotation] = {}
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class Annotations(_YamlModel):
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tables: dict[str, TableAnnotation] = {}
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@classmethod
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def from_yaml(cls, path: Path) -> "Annotations":
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if not path.exists():
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return cls()
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return super().from_yaml(path)
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