Validation

Using the ISA API you can validate ISA tab and ISA JSON files. The ISA tab validation utilises the legacy Java validator, so you must have Java 1.6 or later installed on your host machine. The ISA JSON validation checks JSON against the JSON schemas that are included in the API in the isatools/schemas/isa_model_version_1_0_schemas/core directory.

Validating ISA tab

To validate ISA tab files in a given directory ./tabdir/ against a given configuration found in a directory ./isaconfig-default_v2015-07-02/, do something like the following:

from isatools import isatab
isatab.validate('./tabdir/', './isaconfig-default_v2015-07-02/')

Validating ISA JSON

To validate an ISA JSON file against the ISA version 1.0 schemas, you need to validate against the investigation_schema.json schema. You can do this by doing something like:

from isatools.validate import validate_json
validate_json.validateJsonAgainstSchemas('investigation_schema.json', 'isa.json')

Make sure you put the full path to the to the location of investigation_schema.json.