VeddlZddlmZddlmZddlmZddlm Z ddl m Z ddl m Z dd lmZmZmZdd lmZdd lmZmZeeZdd Zd ZdZdZdZdZddZy)N)deepcopy) getLogger)warn)EidoValidationError)flatten)Draft7Validator) FILES_KEYPROP_KEYREQUIRED_FILES_KEY)PathAttrNotFoundError)preprocess_schema read_schemact|}tj|d||j|st |j |d}i}|D]j}|j |vrg||j < |j|}||j j|j |j d||dltd|tjdy #t$rd}YlwxYw) a7 Generic function to validate object against a schema :param Mapping obj: an object to validate :param str | dict schema: schema dict to validate against or a path to one from the error. Useful when used ith large projects :raises EidoValidationError: if validation is unsuccessful z, c|jSN)path)es /lib/python3.12/site-packages/eido/validation.pyz"_validate_object..$s !&&)keyprojectz on instance )typemessage sample_namezValidation failedzValidation was successful...N) r _LOGGERdebugis_validsorted iter_errorsrinstanceKeyErrorappendr)objschemasample_name_colname validatorerrorserrors_by_typeerror instance_names r_validate_objectr-s 'I MMSEfX&'   c " --c28HI E==N202u}}- * %/B C  5== ) 0 0!MM"'-- m_M#0   ""5~FF 45 * )  *s9C'' C54C5c|j}t|}|D]=}|j}t|t ||t j d?y)z Validate a project object against a schema :param peppy.Project project: a project object to validate :param str | dict schema: schema dict to validate against or a path to one from the error. Useful when used ith large projects r&zProject validation successfulN)r'rto_dictr-rrr)rr&r' schema_dicts schema_dict project_dicts rvalidate_projectr4=sZ"55f-L#7 (  +K8:M   56 7rc|D]Y}t|}|tdd}t|j|tj t |ddd[y)a Internal function that allows to validate a peppy.Sample object without requiring a reference to peppy.Project. :param peppy.Sample sample: a sample object to validate :param list[dict] schemas: list of schemas to validate against or a path to one _samplesitemsrz sample validation successfulN)rr r-r0rrgetattr)sampleschemasr2sample_schema_dicts r_validate_sample_objectr=Ose ' 4 (2:>wG)+=> v}b122O P  rct|tr|j|n|j|}t |t |y)a Validate the selected sample object against a schema :param peppy.Project project: a project object to validate :param str | int sample_name: name or index of the sample to validate :param str | dict schema: schema dict to validate against or a path to one r/)r:r;N) isinstanceintsamples get_sampler=r)rrr&r:s rvalidate_samplerC`sD k3 '  $    , 6*rc8t|}|D]k}tt|} |td=d|vr |dj d|j}t||tjdmy#t$rYXwxYw#t $rYNwxYw)z Validate the config part of the Project object against a schema :param peppy.Project project: a project object to validate :param str | dict schema: schema dict to validate against or a path to one r/r6requiredzConfig validation successfulN) rrdpcpyr r#remove ValueErrorr0r-rr)rr&r1r2 schema_cpyr3s rvalidate_configrJssf-L# 6 &u['9:  8$Z0  # :&--j9( z2 45 6      s" A>B > B  B  BBc |syt|ts|g}tt|Dcgc]}t||dc}Scc}w)a Get value corresponding to each given attribute. :param Mapping obj: an object to get the attributes from :param str | Iterable[str] attrlist: names of attributes to retrieve values for :return dict: value corresponding to each named attribute; null if this Sample's value for the attribute given by the argument to the "attrlist" parameter is empty/null, or if this Sample lacks the indicated attribute Nr8)r?listrr9)r%attrlistattrs r_get_attr_valuesrOsB  h %: HEDdB/EF GGEsA c\| |j}n3t|tr|j|n|j|}|g}t|tr t |}|D]?}t ||t}t}|d}|ddd}t|vr"|jt||tt|vr-tt||t}|j||D cgc]$} tjj| r#| &} } |D cgc]$} tjj| r#| &} } | r%tdt!||j"d| | st%dt!||j"d |ycc} wcc} w) ag Determine which of the required and optional files are missing. The names of the attributes that are required and/or deemed as inputs are sourced from the schema, more specifically from `required_files` and `files` sections in samples section: - If any of the required files are missing, this function raises an error. - If any of the optional files are missing, the function raises a warning. Note, this function also performs Sample object validation with jsonschema. :param peppy.Project project: project that defines the samples to validate :param str | dict schema: schema dict to validate against or a path to one :param str | int sample_name: name or index of the sample to validate. If None, validate all samples in the project :raise PathAttrNotFoundError: if any required sample attribute is missing N)r;r: propertiesr6r7z For sample 'z'. Optional inputs not found: z'. Required inputs not found: )rAr?r@rBstrrr=setr updaterOr osrexistsrr9sample_table_indexr ) rr;rrAr: all_inputsrequired_inputsr&r<imissing_required_inputsmissing_inputss rvalidate_input_filesr^s(//+s+ OOK (##K0  )'3g&?U %#L1*=gF * *   .v7I)7TU V !3 3! );@ 1 #XIs8$F$F$'$F) F))Fr)rVcopyrrFloggingrwarningsr exceptionsrpandas.core.commonr jsonschemar constr r r r r&rr__name__rr-r4r=rCrJrOr^rrrhs] "+'& .2 H "6J7$ "&60H*<r