Replace the use of bidsschematools with the use of deno-compiled BIDS validator in obtaining validation result

dandi/bids_validator_deno/__init__.py

@@ -0,0 +1,9 @@
+"""Package providing an interface to the deno-compiled BIDS validator"""
+
+from ._validator import bids_validate, get_version
+
+__all__ = ["bids_validate", "get_version"]
+
+
+def __dir__() -> list[str]:
+    return list(__all__)  # return a copy of `__all__` to avoid modifying the original

dandi/bids_validator_deno/_models.py

@@ -0,0 +1,78 @@
+# This file holds the models used to interface with the deno-compiled BIDS validator
+# with the `--json` option. The defined entities in this file share the same names and
+# structure as those defined in
+# https://github.com/bids-standard/bids-validator/blob/main/src/types/validation-result.ts
+# and
+# https://github.com/bids-standard/bids-validator/blob/main/src/issues/datasetIssues.ts
+# The only exception to that rule is that the `ValidationResult` type in the
+# BIDS validator source is named `BidsValidationResult` in this file.
+
+from __future__ import annotations
+
+from enum import auto
+from typing import Any, Literal, Optional, Union
+
+from pydantic import BaseModel, ConfigDict
+
+from dandi.utils import StrEnum
+
+
+class BidsValidationResult(BaseModel):
+    issues: DatasetIssues
+    summary: SummaryOutput
+    derivativesSummary: Optional[dict[str, BidsValidationResult]] = None
+
+    model_config = ConfigDict(strict=True)
+
+
+class DatasetIssues(BaseModel):
+    issues: list[Issue]
+    codeMessages: dict[str, str]
+
+    model_config = ConfigDict(strict=True)
+
+
+class Issue(BaseModel):
+    code: str
+    subCode: Optional[str] = None
+    severity: Optional[Severity] = None
+    location: Optional[str] = None
+    issueMessage: Optional[str] = None
+    suggestion: Optional[str] = None
+    affects: Optional[list[str]] = None
+    rule: Optional[str] = None
+    line: Optional[int] = None
+    character: Optional[int] = None
+
+    model_config = ConfigDict(strict=True)
+
+
+class Severity(StrEnum):
+    warning = auto()
+    error = auto()
+    ignore = auto()
+
+
+class SummaryOutput(BaseModel):
+    sessions: list[str]
+    subjects: list[str]
+    subjectMetadata: list[SubjectMetadata]
+    tasks: list[str]
+    modalities: list[str]
+    secondaryModalities: list[str]
+    totalFiles: int
+    size: int
+    dataProcessed: bool
+    pet: dict[str, Any]
+    dataTypes: list[str]
+    schemaVersion: str
+
+    model_config = ConfigDict(strict=True)
+
+
+class SubjectMetadata(BaseModel):
+    participantId: str
+    age: Union[int, Literal["89+"], None] = None
+    sex: Optional[str] = None
+
+    model_config = ConfigDict(strict=True)