2.2.3

Fixed

• NIfTI files with bad qform matrices, resulting from non-normalized quaternions, would previously raise a NIFTI_HEADER_UNREADABLE error. Now only the axis codes are disabled, preventing orientation checks, but not raising errors.

Pull requests merged

• fix: Set nifti_header.axis_codes to null for bad qforms, rather than error by @effigies in #297

Full Changelog: 2.2.2...2.2.3

2.2.2

Changed

• Support min() and max() of numbers in the expression language. This allows for simpler rules when a field may be a number or array of numbers.

• Annexed files that are not local are treated as empty instead of erroring if a remote URL could not be constructed. The size of missing files are included in the summary estimate of dataset size.

Fixed

• INVALID_FILE_ENCODING issues now print sensible messages instead of crashing.

Pull requests merged

• feat: Support min/max of single numbers by @effigies in #284
• chore: Bump schema by @effigies in #285
• feat: Fall back to an empty file for absent symlinks with no public S3 URL by @effigies in #287
• chore(ci): Build against macos-15-intel by @effigies in #289
• fix: Add missing INVALID_FILE_ENCODING issue definition by @nellh in #292

Full Changelog: 2.2.1...2.2.2

2.2.1

Added

• Support for associations.physio and associations.events.sidecar.

• Implement associations.coordsystems to collate multiple coordsystem.json files,
  as required by BEP 042 (EMG).

Changed

• Validation context generation was tweaked to improve concurrency, giving 4x validation
  speedups in some cases.

Pull requests merged

• test: Add opener implementations for tests by @effigies in #283
• feat: Start loading contexts earlier, buffer contexts for better concurrency by @effigies in #282
• BEP020 patches by @effigies in #260
• BEP042 patches by @drammock in #268

Full Changelog: 2.2.0...2.2.1

2.2.0

Added

• Added --format option to specify output format: text (default), json, or json_pp (pretty-printed JSON)

• Pretty-printed JSON output support via --format json_pp option

• Datalad/git-annex datasets with remote content in public S3 buckets can be validated with the --preferredRemote <remote-name> flag. If a public S3 bucket is detected without this flag, the most recent export is used.

Changed

• Refactored file access classes to be more DRY.

Fixed

• Circular references that could lead to a hanging process were mitigated. (#278)

Deprecated

• Deprecated --json option in favor of --format json (backward compatibility maintained)

What's Changed

• fix: Weakly reference parent FileTrees, upgrade hed-validator by @effigies in #279
• feat: add --format option for output formatting by @djken2009 in #271
• rf: Make BIDSFile generic wrapper, with FileOpener providing the file type handling by @effigies in #280
• feat: Load annexed data from public S3 special remotes by @effigies in #281

Full Changelog: 2.1.1...2.2.0

2.1.1

Added

• Additional (dataset-defined) columns are now validated against the
  definitions in the sidecar files.

• Throw error on file name case collision.

• Add support for the unique() function in schema expressions.

• Support issues messages that access validation context variables.

Changed

• Initial column TSV checks now support missing, optional initial columns.

• Index column TSV checks now support missing, optional index columns.

• Now supports Deno 2.5 and Typescript 5.9.2.

• Parsed JSON files are now cached to reduce I/O and parsing costs.

• Throw an error if specified schema (e.g. via --schema or BIDS_SCHEMA env
  var) could not be loaded.

Fixed

• File access failures consistently produce FILE_READ errors across all file types.

• Fixed json encoding issue in web log download (#174).

• Throw utf-8 encoding error for tsv files similar to json files.

Pull requests merged

• feat: Allow initial and index columns to be non-required by @effigies in #243
• fix: Check index columns by @effigies in #255
• chore: Use deno 2.4 in CI by @effigies in #257
• type: Adapt to changes in ArrayBuffers in Typescript 5.9.2 by @effigies in #258
• chore: Bump dependency specs by @effigies in #256
• feat: Add file access functions that translate errors into issues by @effigies in #259
• feat: Cache JSON file loads by @effigies in #262
• fix: properly encode JSON data in data URL for download link by @djken2009 in #263
• feat: add unique() function for expressions by @drammock in #261
• throw utf8 encoding error for tsv files, add non utf-8 test data and test. by @rwblair in #264
• Throw an error, do not just log an error, if provided schema is not legit by @yarikoptic in #270
• fix: Include target entities in exact match check by @effigies in #273
• feat: Load datatype and modality when building file context by @effigies in #272
• feat: Add issue message formatting by @effigies in #267
• Add per context check to see if any files in its directory have the same name with different case by @rwblair in #265
• rf: Validate additional columns when defined by @effigies in #254
• rel: 2.1.1 by @effigies in #274

New Contributors

• @djken2009 made their first contribution in #263
• @drammock made their first contribution in #261

Full Changelog: 2.1.0...2.1.1

2.1.0

This release adds support for BIDS 1.10.1.

Added

• Load .tsv.gz column contents for validation.
• Issue deprecation warning for "89+" in age columns, per bids-standard/bids-specification#2162.
• Added support for extracting image orientation from NIfTI headers, added to the BIDS schema in 1.10.1.

Changed

• Raise errors for all TSV type check failures. Previously, recommended and optional fields would raise warnings.
• Updated @bids/schema to ~1.1.0, corresponding to BIDS version 1.10.1.

Fixed

• Avoid descending into opaque directories (such as *.zarr/) when checking for unused sidecars. (#227)

Pull requests merged

• chore(dev): Bump @bids/schema v1.1.0-dev by @effigies in #129
• chore: Bump @bids/schema v1.1.0-dev.5 by @effigies in #153
• feat: Implement warning for sidecar overrides by @effigies in #214
• chore: Upgrade schema for dev validator by @effigies in #241
• chore(ci): Verify only first tag by @effigies in #246
• chore: Bump @bids/schema to 1.1.0 by @effigies in #249
• feat: Enable type checking on tsv.gz files by @effigies in #240
• feat: Split out deprecation warning for age=="89+" by @effigies in #242
• feat: Extract image orientation from NIfTI header by @effigies in #112
• feat: Always error on incorrect TSV types by @effigies in #247
• fix: Do not descend into pseudo-files or opaque directories when checking for unused files by @rwblair in #231

Full Changelog: 2.0.11...2.1.0

2.0.11

Fixed

• Docker build workflow should now run correctly on releases.

What's Changed

• chore(ci): Fix actions/checkout invocation for tags by @effigies in #245

Full Changelog: 2.0.10...2.0.11

2.0.10

Added

• Added a FAQ to the user guide. (#215)

Changed

• Improved handling of TSV columns with sidecar definitions. "Format", "Minimum" and "Maximum" keys are now supported.

• --datasetTypes and --blacklistModalities options now accept a string array (--datasetTypes raw,derivative) and can be combined.

Fixed

• A crash in the web validator prevented validation from taking place.

Infrastructure

• Docker images will once again be pushed to bids/validator.

Pull requests merged

• fix: Use string[] options for datasetTypes and blacklistModalities by @nellh in #238
• chore: Reenable DockerHub pushes by @effigies in #237
• doc: Add FAQ by @effigies in #233
• rf: Throw more issue-like objects in loading functions by @effigies in #236
• feat: Unify schema and sidecar-defined column validation by @effigies in #234
• fix: Do not crash on missing datasetTypes option by @effigies in #244

Full Changelog: 2.0.9...2.0.10

2.0.9

Added

• Display version in web app

• The --datasetTypes flag accepts a list of DatasetTypes,
  allowing applications to restrict the datasets they accept.

Changed

• Upgraded to BIDS schema version 1.0.13.

• Raise error when JSON files are parsed and their root value is anything other than an object

PRs

• chore: Bump schema version by @effigies in #223
• chore(deps): Bump hed-validator dependency to 4.1.4 by @happy5214 in #220
• chore: Update BIDS schema, relax to ~version by @effigies in #230
• Raise error when json files are parsed and their root value is an array instead of object. by @rwblair in #225
• feat: Display version in web app by @effigies in #208
• fix: Revert to HED validator 4.0 by @effigies in #232
• feat: Add DatasetType passlist to allow applications to limit support by @effigies in #235

Full Changelog: 2.0.8...2.0.9

2.0.8

Added

• Support multi-inheritance for associated files.
  This will allow for multiple electrodes.tsv files,
  distinguished by the space- entity. (#206 #207)