bids-validator

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HED Validator integration into bids schema based validator.

13

For #1639. `bids-validator/src/deps/hed-validator` dependency was generated by running `npm run build` on latest commit for hed-javascript: https://github.com/hed-standard/hed-javascript/commit/bba927b7b713f6aad7864b9aabc8b9afe70456cf Two main functions located in `bids-validator/src/validators/hed.ts` are `hedAccumulator` and `hedValidate` `hedAccumulator` is called...

rwblair

Currently always exits 0

effigies

Deno validator import path error

3

``` $ deno run --allow-read --allow-env https://deno.land/x/bids_validator/bids-validator.ts . Warning Implicitly using latest version (v1.14.2-dev.0) for https://deno.land/x/bids_validator/bids-validator.ts error: Relative import path "std/log/levels.ts" not prefixed with / or ./ or ../ at...

effigies

TL;DR: The deno validator app does not output an error when a required file, such as dataset_description.json, is not present in the dataset. Since the Deno validator is currently in...

bleonar5

Checking participants against folder names

4

The participants.tsv file does not contain the same subject ID as the folder name. One may reasonably assume that the subjects are in the same order as the folder in...

arnodelorme

"phenotype.tsv" referenced in part of validator, but this is not a BIDS file

1

https://github.com/bids-standard/bids-validator/blob/2d923f501bcf97b14e612833fb1bcb3af39f2b67/bids-validator/bids_validator/tsv/non_custom_columns.json#L68 In BIDS we have `phenotype/.tsv` but not `phenotype.tsv`. See: https://bids-specification.readthedocs.io/en/stable/modality-agnostic-files.html#phenotypic-and-assessment-data brought up by @VisLab in #1876

sappelhoff

empty dataset name and authors

5

Just tested it and validation passes without warning if leave an empty string (`""`) or just spaces (`" "`) for the dataset_descrtiption name . Same for `Authors`. This probably deserves...

Remi-Gau

phenotype doesn't appear to allow more than one assessment.

3

I am using [email protected] to validate [fnirs_automaticity](https://github.com/bids-standard/bids-examples/tree/master/fnirs_automaticity) in `bids-examples`. It validates. However, when I add a second assessment such as in [phenotype.zip](https://github.com/bids-standard/bids-validator/files/13823654/phenotype.zip) it gives the following error: > 1: [ERR]...

VisLab

Relates to already filed - https://github.com/bids-standard/bids-validator/issues/1639 but main motivation for me ATM was to possibly integrate with - nwb validator (in Python): https://pynwb.readthedocs.io/en/stable/validation.html - validates against base schema - nwb...

yarikoptic

Request for a Python Variant of JS bids-validator

4

Our team frequently utilizes the JS bids-validator and appreciates its robust capabilities. Given the increasing adoption of Python in the neuroimaging community and some challenges we face using the Node-based...

hjbockholt