Examples with SnapshotRequestAssetModel bio.terra.model.SnapshotRequestAssetModel used on opensource projects

Example 1 with SnapshotRequestAssetModel

use of bio.terra.model.SnapshotRequestAssetModel in project jade-data-repo by DataBiosphere.

the class SnapshotService method getAssetSpecificationFromRequest.

private AssetSpecification getAssetSpecificationFromRequest(SnapshotRequestContentsModel requestContents) {
    SnapshotRequestAssetModel requestAssetModel = requestContents.getAssetSpec();
    Dataset dataset = datasetService.retrieveByName(requestContents.getDatasetName());
    Optional<AssetSpecification> optAsset = dataset.getAssetSpecificationByName(requestAssetModel.getAssetName());
    if (!optAsset.isPresent()) {
        throw new AssetNotFoundException("Asset specification not found: " + requestAssetModel.getAssetName());
    }
    // the map construction will go here. For MVM, we generate the mapping data directly from the asset spec.
    return optAsset.get();
}

Example 2 with SnapshotRequestAssetModel

use of bio.terra.model.SnapshotRequestAssetModel in project jade-data-repo by DataBiosphere.

the class CreateSnapshotPrimaryDataAssetStep method doStep.

@Override
public StepResult doStep(FlightContext context) throws InterruptedException {
    /*
         * map field ids into row ids and validate
         * then pass the row id array into create snapshot
         */
    SnapshotRequestContentsModel contentsModel = snapshotReq.getContents().get(0);
    SnapshotRequestAssetModel assetSpec = contentsModel.getAssetSpec();
    Snapshot snapshot = snapshotDao.retrieveSnapshotByName(snapshotReq.getName());
    SnapshotSource source = snapshot.getSnapshotSources().get(0);
    RowIdMatch rowIdMatch = bigQueryPdao.mapValuesToRows(snapshot, source, assetSpec.getRootValues());
    if (rowIdMatch.getUnmatchedInputValues().size() != 0) {
        String unmatchedValues = String.join("', '", rowIdMatch.getUnmatchedInputValues());
        String message = String.format("Mismatched input values: '%s'", unmatchedValues);
        FlightUtils.setErrorResponse(context, message, HttpStatus.BAD_REQUEST);
        return new StepResult(StepStatus.STEP_RESULT_FAILURE_FATAL, new MismatchedValueException(message));
    }
    bigQueryPdao.createSnapshot(snapshot, rowIdMatch.getMatchingRowIds());
    return StepResult.getStepResultSuccess();
}

Example 3 with SnapshotRequestAssetModel

use of bio.terra.model.SnapshotRequestAssetModel in project jade-data-repo by DataBiosphere.

the class SnapshotValidationTest method testSnapshotValuesListEmpty.

@Test
public void testSnapshotValuesListEmpty() throws Exception {
    SnapshotRequestAssetModel assetSpec = new SnapshotRequestAssetModel().assetName("asset").rootValues(Collections.emptyList());
    SnapshotRequestContentsModel snapshotRequestContentsModel = new SnapshotRequestContentsModel().datasetName("dataset").mode(SnapshotRequestContentsModel.ModeEnum.BYASSET).assetSpec(assetSpec);
    snapshotByAssetRequest.contents(Collections.singletonList(snapshotRequestContentsModel));
    expectBadSnapshotCreateRequest(snapshotByAssetRequest);
}

Example 4 with SnapshotRequestAssetModel

use of bio.terra.model.SnapshotRequestAssetModel in project jade-data-repo by DataBiosphere.

the class SnapshotValidationTest method makeSnapshotAssetRequest.

// Generate a valid snapshot-by-asset request, we will tweak individual pieces to test validation below
public SnapshotRequestModel makeSnapshotAssetRequest() {
    SnapshotRequestAssetModel assetSpec = new SnapshotRequestAssetModel().assetName("asset").rootValues(Arrays.asList("sample 1", "sample 2", "sample 3"));
    SnapshotRequestContentsModel snapshotRequestContentsModel = new SnapshotRequestContentsModel().datasetName("dataset").mode(SnapshotRequestContentsModel.ModeEnum.BYASSET).assetSpec(assetSpec);
    return new SnapshotRequestModel().name("snapshot").description("snapshot description").addContentsItem(snapshotRequestContentsModel);
}

Example 5 with SnapshotRequestAssetModel

use of bio.terra.model.SnapshotRequestAssetModel in project jade-data-repo by DataBiosphere.

the class SnapshotValidationTest method testSnapshotAssetNameInvalid.

@Test
public void testSnapshotAssetNameInvalid() throws Exception {
    SnapshotRequestAssetModel assetSpec = snapshotByAssetRequest.getContents().get(0).getAssetSpec();
    assetSpec.setAssetName("no spaces");
    expectBadSnapshotCreateRequest(snapshotByAssetRequest);
    assetSpec.setAssetName("no-dashes");
    expectBadSnapshotCreateRequest(snapshotByAssetRequest);
    assetSpec.setAssetName("");
    expectBadSnapshotCreateRequest(snapshotByAssetRequest);
    // Make a 64 character string, it should be considered too long by the validation.
    String tooLong = StringUtils.repeat("a", 64);
    assetSpec.setAssetName(tooLong);
    expectBadSnapshotCreateRequest(snapshotByAssetRequest);
}