Examples with AssociationValidationView uk.ac.ebi.spot.goci.curation.model.AssociationValidationView used on opensource projects

Example 6 with AssociationValidationView

use of uk.ac.ebi.spot.goci.curation.model.AssociationValidationView in project goci by EBISPOT.

the class AssociationController method addSnpInteraction.

@RequestMapping(value = "/studies/{studyId}/associations/add_interaction", produces = MediaType.TEXT_HTML_VALUE, method = RequestMethod.POST)
public String addSnpInteraction(@ModelAttribute("form") @Valid SnpAssociationInteractionForm snpAssociationInteractionForm, BindingResult bindingResult, @PathVariable Long studyId, Model model, @RequestParam(required = true) String measurementType, HttpServletRequest request) throws EnsemblMappingException {
    Study study = studyRepository.findOne(studyId);
    model.addAttribute("study", study);
    model.addAttribute("measurementType", measurementType);
    // Binding vs Validator issue. File: messages.properties
    if (bindingResult.hasErrors()) {
        model.addAttribute("form", snpAssociationInteractionForm);
        return "add_snp_interaction_association";
    }
    // Check for errors in form that would prevent saving an association
    List<AssociationValidationView> colErrors = associationOperationsService.checkSnpAssociationInteractionFormErrors(snpAssociationInteractionForm, measurementType);
    if (!colErrors.isEmpty()) {
        model.addAttribute("errors", colErrors);
        model.addAttribute("form", snpAssociationInteractionForm);
        model.addAttribute("criticalErrorsFound", true);
        return "add_snp_interaction_association";
    } else {
        // Create an association object from details in returned form
        Association newAssociation = snpInteractionAssociationService.createAssociation(snpAssociationInteractionForm);
        // Save and validate form
        Collection<AssociationValidationView> errors = null;
        String eRelease = ensemblRestTemplateService.getRelease();
        try {
            errors = associationOperationsService.saveAssociationCreatedFromForm(study, newAssociation, currentUserDetailsService.getUserFromRequest(request), eRelease);
        } catch (EnsemblMappingException e) {
            return "ensembl_mapping_failure";
        }
        // Determine if we have any errors rather than warnings
        long errorCount = errors.stream().filter(validationError -> !validationError.getWarning()).count();
        if (errorCount > 0) {
            model.addAttribute("errors", errors);
            model.addAttribute("form", snpAssociationInteractionForm);
            model.addAttribute("criticalErrorsFound", true);
            return "add_snp_interaction_association";
        } else {
            return "redirect:/associations/" + newAssociation.getId();
        }
    }
}

Example 7 with AssociationValidationView

use of uk.ac.ebi.spot.goci.curation.model.AssociationValidationView in project goci by EBISPOT.

the class AssociationValidationReportService method generateAssociationWarningsListView.

/**
     * Retrieve validation warnings for an association and return this is a structure accessible by view
     *
     * @param associationId ID of association to get warning for
     */
public List<AssociationValidationView> generateAssociationWarningsListView(Long associationId) {
    List<AssociationValidationView> associationValidationViews = new ArrayList<>();
    associationValidationReportRepository.findByAssociationId(associationId).forEach(associationValidationReport -> {
        associationValidationViews.add(new AssociationValidationView(associationValidationReport.getValidatedField(), associationValidationReport.getWarning(), true));
    });
    return associationValidationViews;
}

Example 8 with AssociationValidationView

use of uk.ac.ebi.spot.goci.curation.model.AssociationValidationView in project goci by EBISPOT.

the class AssociationOperationsService method processAssociationValidationErrors.

/**
     * Retrieve validation warnings for an association and return this is a structure accessible by view
     *
     * @param errors List of validation errors to process
     */
private List<AssociationValidationView> processAssociationValidationErrors(Collection<ValidationError> errors) {
    List<AssociationValidationView> associationValidationViews = new ArrayList<>();
    errors.forEach(validationError -> {
        associationValidationViews.add(new AssociationValidationView(validationError.getField(), validationError.getError(), validationError.getWarning()));
    });
    return associationValidationViews;
}