BioCompute Objects schema validator (v1.4.2)
validate_schema_v1.4.2(file)
validate_schema(file)Path to the BCO JSON file
None
JSON schema validators for BCO domains and complete BCO based on jsonvalidate. Refer to the BioCompute Objects Schema for specific JSON schemas.
bco <- tempfile(fileext = ".json")
generate_example("HCV1a") %>%
convert_json() %>%
export_json(bco)
bco %>% validate_schema()
#> ── 0: Validating BioCompute Object ─────────────────────────────────────────────
#> [1] FALSE
#> attr(,"errors")
#> field message
#> 1 data.extension_domain is the wrong type
#>
#> ── 1: Validating Provenance Domain ─────────────────────────────────────────────
#> [1] FALSE
#> attr(,"errors")
#> field message
#> 1 data.review.0.date is the wrong type
#> 2 data.review.1.date is the wrong type
#> 3 data.obsolete_after must be date-time format
#> 4 data.embargo is the wrong type
#> 5 data.created must be date-time format
#> 6 data.modified must be date-time format
#>
#> ── 2: Validating Usability Domain ──────────────────────────────────────────────
#> [1] TRUE
#>
#> ── 3: Validating Description Domain ────────────────────────────────────────────
#> [1] FALSE
#> attr(,"errors")
#> field message
#> 1 data.xref.0.ids is the wrong type
#> 2 data.xref.0.access_time must be date-time format
#> 3 data.xref.1.ids is the wrong type
#> 4 data.xref.1.access_time must be date-time format
#> 5 data.xref.2.access_time must be date-time format
#> 6 data.xref.3.ids is the wrong type
#> 7 data.xref.3.access_time must be date-time format
#> 8 data.pipeline_steps.0.step_number is the wrong type
#>
#> ── 4: Validating Execution Domain ──────────────────────────────────────────────
#> [1] FALSE
#> attr(,"errors")
#> field message
#> 1 data.external_data_endpoints.0 is the wrong type
#> 2 data.external_data_endpoints.1 is the wrong type
#> 3 data.external_data_endpoints.2 is the wrong type
#>
#> ── 5: Validating Parametric Domain ─────────────────────────────────────────────
#> [1] TRUE
#>
#> ── 6: Validating I/O Domain ────────────────────────────────────────────────────
#> [1] TRUE
#>
#> ── 7: Validating Error Domain ──────────────────────────────────────────────────
#> [1] TRUE
#>