scripts/_capabilities.py
20.2 KB| 1 | #!/usr/bin/env python3 |
| 2 | """Closed capability registry and lightweight format checks for EDA tools.""" |
| 3 | |
| 4 | from __future__ import annotations |
| 5 | |
| 6 | import itertools |
| 7 | import zipfile |
| 8 | from pathlib import Path |
| 9 | from typing import Any |
| 10 | |
| 11 | from _common import ( |
| 12 | MAX_COMPRESSION_RATIO, |
| 13 | MAX_NPZ_MEMBERS, |
| 14 | MAX_NPZ_UNCOMPRESSED_BYTES, |
| 15 | CliError, |
| 16 | ) |
| 17 | |
| 18 | |
| 19 | AUTOMATED_FORMATS: dict[str, dict[str, Any]] = { |
| 20 | ".csv": { |
| 21 | "format": "CSV", |
| 22 | "tier": "automated_core", |
| 23 | "depth": "bounded schema, aggregate profile, missingness, and sensitivity audit", |
| 24 | "dependency": "Python standard library", |
| 25 | "reference": "references/general_scientific_formats.md", |
| 26 | }, |
| 27 | ".tsv": { |
| 28 | "format": "TSV", |
| 29 | "tier": "automated_core", |
| 30 | "depth": "bounded schema, aggregate profile, missingness, and sensitivity audit", |
| 31 | "dependency": "Python standard library", |
| 32 | "reference": "references/general_scientific_formats.md", |
| 33 | }, |
| 34 | ".json": { |
| 35 | "format": "JSON", |
| 36 | "tier": "automated_core", |
| 37 | "depth": "bounded strict parse and structural aggregate profile", |
| 38 | "dependency": "Python standard library", |
| 39 | "reference": "references/general_scientific_formats.md", |
| 40 | }, |
| 41 | ".npy": { |
| 42 | "format": "NumPy NPY", |
| 43 | "tier": "automated_optional", |
| 44 | "depth": "header, shape, dtype, and bounded numeric sample", |
| 45 | "dependency": "numpy==2.5.3", |
| 46 | "reference": "references/general_scientific_formats.md", |
| 47 | }, |
| 48 | ".npz": { |
| 49 | "format": "NumPy NPZ", |
| 50 | "tier": "automated_optional", |
| 51 | "depth": "ZIP bomb preflight plus per-array bounded inspection", |
| 52 | "dependency": "numpy==2.5.3", |
| 53 | "reference": "references/general_scientific_formats.md", |
| 54 | }, |
| 55 | ".h5": { |
| 56 | "format": "HDF5", |
| 57 | "tier": "automated_optional", |
| 58 | "depth": "bounded hierarchy and dataset metadata; no dataset values or external links", |
| 59 | "dependency": "h5py==3.16.0", |
| 60 | "reference": "references/general_scientific_formats.md", |
| 61 | }, |
| 62 | ".hdf5": { |
| 63 | "format": "HDF5", |
| 64 | "tier": "automated_optional", |
| 65 | "depth": "bounded hierarchy and dataset metadata; no dataset values or external links", |
| 66 | "dependency": "h5py==3.16.0", |
| 67 | "reference": "references/general_scientific_formats.md", |
| 68 | }, |
| 69 | ".fasta": { |
| 70 | "format": "FASTA", |
| 71 | "tier": "automated_optional", |
| 72 | "depth": "bounded record sample with length, alphabet, and GC aggregates", |
| 73 | "dependency": "biopython==1.88", |
| 74 | "reference": "references/bioinformatics_genomics_formats.md", |
| 75 | }, |
| 76 | ".fa": { |
| 77 | "format": "FASTA", |
| 78 | "tier": "automated_optional", |
| 79 | "depth": "bounded record sample with length, alphabet, and GC aggregates", |
| 80 | "dependency": "biopython==1.88", |
| 81 | "reference": "references/bioinformatics_genomics_formats.md", |
| 82 | }, |
| 83 | ".fna": { |
| 84 | "format": "FASTA", |
| 85 | "tier": "automated_optional", |
| 86 | "depth": "bounded record sample with length, alphabet, and GC aggregates", |
| 87 | "dependency": "biopython==1.88", |
| 88 | "reference": "references/bioinformatics_genomics_formats.md", |
| 89 | }, |
| 90 | ".fastq": { |
| 91 | "format": "FASTQ", |
| 92 | "tier": "automated_optional", |
| 93 | "depth": "bounded record sample with length, GC, and Phred+33 aggregates", |
| 94 | "dependency": "biopython==1.88", |
| 95 | "reference": "references/bioinformatics_genomics_formats.md", |
| 96 | }, |
| 97 | ".fq": { |
| 98 | "format": "FASTQ", |
| 99 | "tier": "automated_optional", |
| 100 | "depth": "bounded record sample with length, GC, and Phred+33 aggregates", |
| 101 | "dependency": "biopython==1.88", |
| 102 | "reference": "references/bioinformatics_genomics_formats.md", |
| 103 | }, |
| 104 | ".png": { |
| 105 | "format": "PNG", |
| 106 | "tier": "automated_optional", |
| 107 | "depth": "container metadata only; pixels are not decoded", |
| 108 | "dependency": "pillow==12.3.0", |
| 109 | "reference": "references/microscopy_imaging_formats.md", |
| 110 | }, |
| 111 | ".jpg": { |
| 112 | "format": "JPEG", |
| 113 | "tier": "automated_optional", |
| 114 | "depth": "container metadata only; pixels are not decoded", |
| 115 | "dependency": "pillow==12.3.0", |
| 116 | "reference": "references/microscopy_imaging_formats.md", |
| 117 | }, |
| 118 | ".jpeg": { |
| 119 | "format": "JPEG", |
| 120 | "tier": "automated_optional", |
| 121 | "depth": "container metadata only; pixels are not decoded", |
| 122 | "dependency": "pillow==12.3.0", |
| 123 | "reference": "references/microscopy_imaging_formats.md", |
| 124 | }, |
| 125 | ".tif": { |
| 126 | "format": "TIFF", |
| 127 | "tier": "automated_optional", |
| 128 | "depth": "bounded TIFF series/page metadata only; pixels are not decoded", |
| 129 | "dependency": "tifffile==2026.9.20", |
| 130 | "reference": "references/microscopy_imaging_formats.md", |
| 131 | }, |
| 132 | ".tiff": { |
| 133 | "format": "TIFF", |
| 134 | "tier": "automated_optional", |
| 135 | "depth": "bounded TIFF series/page metadata only; pixels are not decoded", |
| 136 | "dependency": "tifffile==2026.9.20", |
| 137 | "reference": "references/microscopy_imaging_formats.md", |
| 138 | }, |
| 139 | ".ome.tif": { |
| 140 | "format": "OME-TIFF", |
| 141 | "tier": "automated_optional", |
| 142 | "depth": "bounded TIFF/OME structural metadata only; OME-XML and pixels are not emitted", |
| 143 | "dependency": "tifffile==2026.9.20", |
| 144 | "reference": "references/microscopy_imaging_formats.md", |
| 145 | }, |
| 146 | ".ome.tiff": { |
| 147 | "format": "OME-TIFF", |
| 148 | "tier": "automated_optional", |
| 149 | "depth": "bounded TIFF/OME structural metadata only; OME-XML and pixels are not emitted", |
| 150 | "dependency": "tifffile==2026.9.20", |
| 151 | "reference": "references/microscopy_imaging_formats.md", |
| 152 | }, |
| 153 | } |
| 154 | |
| 155 | |
| 156 | def _reference( |
| 157 | format_name: str, |
| 158 | reference: str, |
| 159 | note: str, |
| 160 | ) -> dict[str, str]: |
| 161 | return { |
| 162 | "format": format_name, |
| 163 | "tier": "reference_only", |
| 164 | "depth": note, |
| 165 | "dependency": "manual or separately validated domain tooling", |
| 166 | "reference": reference, |
| 167 | } |
| 168 | |
| 169 | |
| 170 | REFERENCE_ONLY_FORMATS: dict[str, dict[str, str]] = { |
| 171 | # General tabular/array containers |
| 172 | ".parquet": _reference( |
| 173 | "Apache Parquet", |
| 174 | "references/general_scientific_formats.md", |
| 175 | "documented pandas/Polars/Arrow workflow; no bundled parser", |
| 176 | ), |
| 177 | ".feather": _reference( |
| 178 | "Apache Feather", |
| 179 | "references/general_scientific_formats.md", |
| 180 | "documented columnar workflow; no bundled parser", |
| 181 | ), |
| 182 | ".xlsx": _reference( |
| 183 | "Excel OOXML", |
| 184 | "references/general_scientific_formats.md", |
| 185 | "manual workbook review required, including formulas and hidden content", |
| 186 | ), |
| 187 | ".xls": _reference( |
| 188 | "Legacy Excel", |
| 189 | "references/general_scientific_formats.md", |
| 190 | "manual workbook review required; macros are never executed", |
| 191 | ), |
| 192 | ".zarr": _reference( |
| 193 | "Zarr", |
| 194 | "references/general_scientific_formats.md", |
| 195 | "directory/store format is not accepted by bundled file inspectors", |
| 196 | ), |
| 197 | ".nc": _reference( |
| 198 | "NetCDF", |
| 199 | "references/general_scientific_formats.md", |
| 200 | "documented xarray/netCDF workflow; no bundled parser", |
| 201 | ), |
| 202 | ".mat": _reference( |
| 203 | "MATLAB MAT", |
| 204 | "references/general_scientific_formats.md", |
| 205 | "manual version-aware workflow; no bundled parser", |
| 206 | ), |
| 207 | ".fits": _reference( |
| 208 | "FITS", |
| 209 | "references/general_scientific_formats.md", |
| 210 | "documented Astropy workflow; no bundled parser", |
| 211 | ), |
| 212 | # Bioinformatics/genomics |
| 213 | ".sam": _reference( |
| 214 | "SAM", |
| 215 | "references/bioinformatics_genomics_formats.md", |
| 216 | "use a pinned SAM/BAM validator; no bundled parser", |
| 217 | ), |
| 218 | ".bam": _reference( |
| 219 | "BAM", |
| 220 | "references/bioinformatics_genomics_formats.md", |
| 221 | "use a pinned SAM/BAM validator; no bundled parser", |
| 222 | ), |
| 223 | ".cram": _reference( |
| 224 | "CRAM", |
| 225 | "references/bioinformatics_genomics_formats.md", |
| 226 | "reference-aware validation required; no bundled parser", |
| 227 | ), |
| 228 | ".vcf": _reference( |
| 229 | "VCF", |
| 230 | "references/bioinformatics_genomics_formats.md", |
| 231 | "use a pinned VCF validator; no bundled parser", |
| 232 | ), |
| 233 | ".bcf": _reference( |
| 234 | "BCF", |
| 235 | "references/bioinformatics_genomics_formats.md", |
| 236 | "use a pinned VCF/BCF validator; no bundled parser", |
| 237 | ), |
| 238 | ".bed": _reference( |
| 239 | "BED", |
| 240 | "references/bioinformatics_genomics_formats.md", |
| 241 | "assembly-aware interval validation required; no bundled parser", |
| 242 | ), |
| 243 | ".gff": _reference( |
| 244 | "GFF", |
| 245 | "references/bioinformatics_genomics_formats.md", |
| 246 | "version-aware annotation validation required; no bundled parser", |
| 247 | ), |
| 248 | ".gff3": _reference( |
| 249 | "GFF3", |
| 250 | "references/bioinformatics_genomics_formats.md", |
| 251 | "version-aware annotation validation required; no bundled parser", |
| 252 | ), |
| 253 | ".gtf": _reference( |
| 254 | "GTF", |
| 255 | "references/bioinformatics_genomics_formats.md", |
| 256 | "annotation-specific validation required; no bundled parser", |
| 257 | ), |
| 258 | ".h5ad": _reference( |
| 259 | "AnnData H5AD", |
| 260 | "references/bioinformatics_genomics_formats.md", |
| 261 | "generic HDF5 metadata is not AnnData semantic validation", |
| 262 | ), |
| 263 | ".loom": _reference( |
| 264 | "Loom", |
| 265 | "references/bioinformatics_genomics_formats.md", |
| 266 | "generic HDF5 metadata is not Loom semantic validation", |
| 267 | ), |
| 268 | ".mtx": _reference( |
| 269 | "Matrix Market", |
| 270 | "references/bioinformatics_genomics_formats.md", |
| 271 | "matrix and sidecar alignment require domain tooling", |
| 272 | ), |
| 273 | # Chemistry/molecular |
| 274 | ".pdb": _reference( |
| 275 | "Legacy PDB", |
| 276 | "references/chemistry_molecular_formats.md", |
| 277 | "wwPDB-aware structural validation required; no bundled parser", |
| 278 | ), |
| 279 | ".cif": _reference( |
| 280 | "CIF or PDBx/mmCIF", |
| 281 | "references/chemistry_molecular_formats.md", |
| 282 | "extension is ambiguous; dictionary-aware validation required", |
| 283 | ), |
| 284 | ".mmcif": _reference( |
| 285 | "PDBx/mmCIF", |
| 286 | "references/chemistry_molecular_formats.md", |
| 287 | "wwPDB dictionary-aware validation required; no bundled parser", |
| 288 | ), |
| 289 | ".mol": _reference( |
| 290 | "MDL Molfile", |
| 291 | "references/chemistry_molecular_formats.md", |
| 292 | "chemistry-aware validation required; no bundled parser", |
| 293 | ), |
| 294 | ".sdf": _reference( |
| 295 | "Structure Data File", |
| 296 | "references/chemistry_molecular_formats.md", |
| 297 | "chemistry-aware validation required; no bundled parser", |
| 298 | ), |
| 299 | ".smi": _reference( |
| 300 | "SMILES table", |
| 301 | "references/chemistry_molecular_formats.md", |
| 302 | "line notation requires chemistry-aware parsing; no bundled parser", |
| 303 | ), |
| 304 | ".xyz": _reference( |
| 305 | "XYZ coordinates", |
| 306 | "references/chemistry_molecular_formats.md", |
| 307 | "units and record boundaries require explicit confirmation", |
| 308 | ), |
| 309 | ".dcd": _reference( |
| 310 | "DCD trajectory", |
| 311 | "references/chemistry_molecular_formats.md", |
| 312 | "topology-dependent trajectory tooling required", |
| 313 | ), |
| 314 | ".xtc": _reference( |
| 315 | "XTC trajectory", |
| 316 | "references/chemistry_molecular_formats.md", |
| 317 | "topology-dependent trajectory tooling required", |
| 318 | ), |
| 319 | ".trr": _reference( |
| 320 | "TRR trajectory", |
| 321 | "references/chemistry_molecular_formats.md", |
| 322 | "topology-dependent trajectory tooling required", |
| 323 | ), |
| 324 | # Imaging beyond the bounded metadata inspectors |
| 325 | ".nd2": _reference( |
| 326 | "Nikon ND2", |
| 327 | "references/microscopy_imaging_formats.md", |
| 328 | "vendor-aware reader required; no bundled parser", |
| 329 | ), |
| 330 | ".czi": _reference( |
| 331 | "Zeiss CZI", |
| 332 | "references/microscopy_imaging_formats.md", |
| 333 | "vendor-aware reader required; no bundled parser", |
| 334 | ), |
| 335 | ".lif": _reference( |
| 336 | "Leica LIF", |
| 337 | "references/microscopy_imaging_formats.md", |
| 338 | "vendor-aware reader required; no bundled parser", |
| 339 | ), |
| 340 | ".dcm": _reference( |
| 341 | "DICOM", |
| 342 | "references/microscopy_imaging_formats.md", |
| 343 | "PHI-aware DICOM tooling and policy required", |
| 344 | ), |
| 345 | ".nii": _reference( |
| 346 | "NIfTI", |
| 347 | "references/microscopy_imaging_formats.md", |
| 348 | "orientation-aware neuroimaging tooling required", |
| 349 | ), |
| 350 | ".nii.gz": _reference( |
| 351 | "Compressed NIfTI", |
| 352 | "references/microscopy_imaging_formats.md", |
| 353 | "compressed content is not decompressed by bundled tools", |
| 354 | ), |
| 355 | ".mrc": _reference( |
| 356 | "MRC", |
| 357 | "references/microscopy_imaging_formats.md", |
| 358 | "electron-microscopy-aware tooling required", |
| 359 | ), |
| 360 | ".svs": _reference( |
| 361 | "Aperio SVS", |
| 362 | "references/microscopy_imaging_formats.md", |
| 363 | "whole-slide reader and privacy review required", |
| 364 | ), |
| 365 | ".ndpi": _reference( |
| 366 | "Hamamatsu NDPI", |
| 367 | "references/microscopy_imaging_formats.md", |
| 368 | "whole-slide reader and privacy review required", |
| 369 | ), |
| 370 | # Spectroscopy/proteomics/metabolomics |
| 371 | ".mzml": _reference( |
| 372 | "HUPO-PSI mzML", |
| 373 | "references/spectroscopy_analytical_formats.md", |
| 374 | "schema/CV-aware mass-spectrometry tooling required", |
| 375 | ), |
| 376 | ".mzxml": _reference( |
| 377 | "mzXML", |
| 378 | "references/spectroscopy_analytical_formats.md", |
| 379 | "legacy MS tooling required; no bundled parser", |
| 380 | ), |
| 381 | ".jdx": _reference( |
| 382 | "JCAMP-DX", |
| 383 | "references/spectroscopy_analytical_formats.md", |
| 384 | "technique/version-aware JCAMP parser required", |
| 385 | ), |
| 386 | ".dx": _reference( |
| 387 | "JCAMP-DX", |
| 388 | "references/spectroscopy_analytical_formats.md", |
| 389 | "technique/version-aware JCAMP parser required", |
| 390 | ), |
| 391 | ".spc": _reference( |
| 392 | "SPC", |
| 393 | "references/spectroscopy_analytical_formats.md", |
| 394 | "vendor/variant-aware reader required", |
| 395 | ), |
| 396 | ".mgf": _reference( |
| 397 | "Mascot Generic Format", |
| 398 | "references/spectroscopy_analytical_formats.md", |
| 399 | "MS-specific parser required; no bundled parser", |
| 400 | ), |
| 401 | ".raw": _reference( |
| 402 | "Ambiguous vendor RAW", |
| 403 | "references/spectroscopy_analytical_formats.md", |
| 404 | "extension alone cannot identify the vendor format", |
| 405 | ), |
| 406 | ".mzid": _reference( |
| 407 | "mzIdentML", |
| 408 | "references/proteomics_metabolomics_formats.md", |
| 409 | "schema/CV-aware identification tooling required", |
| 410 | ), |
| 411 | ".mzidentml": _reference( |
| 412 | "mzIdentML", |
| 413 | "references/proteomics_metabolomics_formats.md", |
| 414 | "schema/CV-aware identification tooling required", |
| 415 | ), |
| 416 | ".pepxml": _reference( |
| 417 | "pepXML", |
| 418 | "references/proteomics_metabolomics_formats.md", |
| 419 | "search-engine-aware parser required", |
| 420 | ), |
| 421 | ".protxml": _reference( |
| 422 | "protXML", |
| 423 | "references/proteomics_metabolomics_formats.md", |
| 424 | "protein-inference-aware parser required", |
| 425 | ), |
| 426 | ".mztab": _reference( |
| 427 | "mzTab or mzTab-M", |
| 428 | "references/proteomics_metabolomics_formats.md", |
| 429 | "version-aware PSI validation required; generic TSV parsing is insufficient", |
| 430 | ), |
| 431 | ".featurexml": _reference( |
| 432 | "OpenMS featureXML", |
| 433 | "references/proteomics_metabolomics_formats.md", |
| 434 | "OpenMS-aware parser required", |
| 435 | ), |
| 436 | } |
| 437 | |
| 438 | |
| 439 | def suffix_key(path: Path) -> str: |
| 440 | """Return a registered compound or simple suffix, failing closed otherwise.""" |
| 441 | |
| 442 | name = path.name.casefold() |
| 443 | keys = sorted( |
| 444 | {*AUTOMATED_FORMATS, *REFERENCE_ONLY_FORMATS}, |
| 445 | key=len, |
| 446 | reverse=True, |
| 447 | ) |
| 448 | for key in keys: |
| 449 | if name.endswith(key): |
| 450 | return key |
| 451 | raise CliError("unknown format; no content sniffing or generic fallback is allowed") |
| 452 | |
| 453 | |
| 454 | def capability_for_path(path: Path) -> dict[str, Any]: |
| 455 | """Return a copy of the closed capability entry for a path.""" |
| 456 | |
| 457 | key = suffix_key(path) |
| 458 | entry = AUTOMATED_FORMATS.get(key) or REFERENCE_ONLY_FORMATS[key] |
| 459 | return {"suffix": key, **entry} |
| 460 | |
| 461 | |
| 462 | def _first_nonempty_text_byte(path: Path, *, limit: int = 8192) -> bytes | None: |
| 463 | with path.open("rb") as handle: |
| 464 | chunk = handle.read(limit) |
| 465 | for line in chunk.splitlines(): |
| 466 | stripped = line.lstrip() |
| 467 | if stripped: |
| 468 | return stripped[:1] |
| 469 | return None |
| 470 | |
| 471 | |
| 472 | def validate_magic(path: Path, suffix: str) -> None: |
| 473 | """Check unambiguous signatures without guessing an unsupported format.""" |
| 474 | |
| 475 | try: |
| 476 | with path.open("rb") as handle: |
| 477 | prefix = handle.read(16) |
| 478 | except OSError as exc: |
| 479 | raise CliError("the input header could not be read") from exc |
| 480 | |
| 481 | if suffix == ".npy" and not prefix.startswith(b"\x93NUMPY"): |
| 482 | raise CliError("the NPY signature does not match the declared suffix") |
| 483 | if suffix == ".npz" and not prefix.startswith(b"PK"): |
| 484 | raise CliError("the NPZ ZIP signature does not match the declared suffix") |
| 485 | if suffix in {".h5", ".hdf5"}: |
| 486 | signature = b"\x89HDF\r\n\x1a\n" |
| 487 | found = False |
| 488 | with path.open("rb") as handle: |
| 489 | for offset in itertools.takewhile( |
| 490 | lambda value: value < max(path.stat().st_size, 1), |
| 491 | (0, 512, 1024, 2048, 4096, 8192, 16384, 32768, 65536), |
| 492 | ): |
| 493 | handle.seek(offset) |
| 494 | if handle.read(8) == signature: |
| 495 | found = True |
| 496 | break |
| 497 | if not found: |
| 498 | raise CliError("the HDF5 signature does not match the declared suffix") |
| 499 | if suffix in {".fasta", ".fa", ".fna"}: |
| 500 | if _first_nonempty_text_byte(path) != b">": |
| 501 | raise CliError("the FASTA record marker does not match the declared suffix") |
| 502 | if suffix in {".fastq", ".fq"}: |
| 503 | if _first_nonempty_text_byte(path) != b"@": |
| 504 | raise CliError("the FASTQ record marker does not match the declared suffix") |
| 505 | if suffix == ".png" and not prefix.startswith(b"\x89PNG\r\n\x1a\n"): |
| 506 | raise CliError("the PNG signature does not match the declared suffix") |
| 507 | if suffix in {".jpg", ".jpeg"} and not prefix.startswith(b"\xff\xd8\xff"): |
| 508 | raise CliError("the JPEG signature does not match the declared suffix") |
| 509 | if suffix in {".tif", ".tiff", ".ome.tif", ".ome.tiff"}: |
| 510 | valid = ( |
| 511 | prefix.startswith(b"II*\x00") |
| 512 | or prefix.startswith(b"MM\x00*") |
| 513 | or prefix.startswith(b"II+\x00") |
| 514 | or prefix.startswith(b"MM\x00+") |
| 515 | ) |
| 516 | if not valid: |
| 517 | raise CliError("the TIFF signature does not match the declared suffix") |
| 518 | |
| 519 | |
| 520 | def preflight_npz(path: Path) -> dict[str, Any]: |
| 521 | """Reject encrypted, traversing, oversized, or high-ratio NPZ members.""" |
| 522 | |
| 523 | try: |
| 524 | with zipfile.ZipFile(path) as archive: |
| 525 | members = archive.infolist() |
| 526 | except (OSError, zipfile.BadZipFile, zipfile.LargeZipFile) as exc: |
| 527 | raise CliError("the NPZ container is not a valid bounded ZIP archive") from exc |
| 528 | if not members or len(members) > MAX_NPZ_MEMBERS: |
| 529 | raise CliError( |
| 530 | f"the NPZ member count must be between 1 and {MAX_NPZ_MEMBERS}" |
| 531 | ) |
| 532 | total_uncompressed = 0 |
| 533 | highest_ratio = 0.0 |
| 534 | member_names: set[str] = set() |
| 535 | for member in members: |
| 536 | member_path = Path(member.filename) |
| 537 | normalized_name = member.filename.replace("\\", "/") |
| 538 | normalized_parts = Path(normalized_name).parts |
| 539 | if ( |
| 540 | member.is_dir() |
| 541 | or member_path.is_absolute() |
| 542 | or normalized_name.startswith("/") |
| 543 | or ":" in normalized_name |
| 544 | or ".." in normalized_parts |
| 545 | ): |
| 546 | raise CliError("the NPZ contains an invalid member path") |
| 547 | if normalized_name in member_names: |
| 548 | raise CliError("the NPZ contains duplicate member names") |
| 549 | member_names.add(normalized_name) |
| 550 | if member.flag_bits & 0x1: |
| 551 | raise CliError("encrypted NPZ members are not accepted") |
| 552 | if not member.filename.casefold().endswith(".npy"): |
| 553 | raise CliError("every NPZ member must be an NPY array") |
| 554 | total_uncompressed += member.file_size |
| 555 | denominator = max(member.compress_size, 1) |
| 556 | highest_ratio = max(highest_ratio, member.file_size / denominator) |
| 557 | if total_uncompressed > MAX_NPZ_UNCOMPRESSED_BYTES: |
| 558 | raise CliError( |
| 559 | "the NPZ declared uncompressed size exceeds the safety limit" |
| 560 | ) |
| 561 | if highest_ratio > MAX_COMPRESSION_RATIO: |
| 562 | raise CliError("the NPZ compression ratio exceeds the safety limit") |
| 563 | return { |
| 564 | "member_count": len(members), |
| 565 | "declared_uncompressed_bytes": total_uncompressed, |
| 566 | "maximum_compression_ratio": round(highest_ratio, 3), |
| 567 | } |
| 568 | |
| 569 | |
| 570 | def automated_capability_rows() -> list[dict[str, Any]]: |
| 571 | """Return deterministic rows for the public capability matrix.""" |
| 572 | |
| 573 | return [ |
| 574 | {"suffix": suffix, **AUTOMATED_FORMATS[suffix]} |
| 575 | for suffix in sorted(AUTOMATED_FORMATS) |
| 576 | ] |
文件内容是平台检查时读出的文本，只供查看。平台不会运行包里的任何脚本或程序。
