Examples with FileSystemExecutionException bio.terra.service.filedata.exception.FileSystemExecutionException used on opensource projects

Example 1 with FileSystemExecutionException

use of bio.terra.service.filedata.exception.FileSystemExecutionException in project jade-data-repo by DataBiosphere.

the class FireStoreDependencyDao method deleteSnapshotFileDependencies.

public void deleteSnapshotFileDependencies(Dataset dataset, String snapshotId) throws InterruptedException {
    DatasetDataProject dataProject = dataLocationService.getProjectOrThrow(dataset);
    FireStoreProject fireStoreProject = FireStoreProject.get(dataProject.getGoogleProjectId());
    String dependencyCollectionName = getDatasetDependencyId(dataset.getId().toString());
    CollectionReference depColl = fireStoreProject.getFirestore().collection(dependencyCollectionName);
    Query query = depColl.whereEqualTo("snapshotId", snapshotId);
    ApiFuture<QuerySnapshot> querySnapshot = query.get();
    try {
        List<QueryDocumentSnapshot> documents = querySnapshot.get().getDocuments();
        for (DocumentSnapshot docSnap : documents) {
            logger.info("deleting: " + docSnap.toString());
            docSnap.getReference().delete();
        }
    } catch (ExecutionException ex) {
        throw new FileSystemExecutionException("delete dependencies - execution exception", ex);
    }
}

Example 2 with FileSystemExecutionException

use of bio.terra.service.filedata.exception.FileSystemExecutionException in project jade-data-repo by DataBiosphere.

the class FireStoreDirectoryDao method updateDirectoryEntry.

// Non-transactional update of a directory entry
void updateDirectoryEntry(Firestore firestore, String collectionId, FireStoreDirectoryEntry entry) {
    try {
        DocumentReference newRef = getDocRef(firestore, collectionId, entry);
        ApiFuture<WriteResult> writeFuture = newRef.set(entry);
        writeFuture.get();
    } catch (InterruptedException ex) {
        Thread.currentThread().interrupt();
        throw new FileSystemExecutionException("updateDirectoryEntry - execution interrupted", ex);
    } catch (AbortedException | ExecutionException ex) {
        throw handleExecutionException("updateDirectoryEntry", ex);
    }
}

Example 3 with FileSystemExecutionException

use of bio.terra.service.filedata.exception.FileSystemExecutionException in project jade-data-repo by DataBiosphere.

the class FireStoreFileDao method lookupByFileId.

private DocumentSnapshot lookupByFileId(Firestore firestore, String collectionId, String fileId, Transaction xn) {
    DocumentReference docRef = getFileDocRef(firestore, collectionId, fileId);
    ApiFuture<DocumentSnapshot> docSnapFuture = xn.get(docRef);
    try {
        return docSnapFuture.get();
    } catch (InterruptedException ex) {
        Thread.currentThread().interrupt();
        throw new FileSystemExecutionException("lookupByFileId - execution interrupted", ex);
    } catch (ExecutionException ex) {
        throw new FileSystemExecutionException("lookupByFileId - execution exception", ex);
    }
}

Example 4 with FileSystemExecutionException

use of bio.terra.service.filedata.exception.FileSystemExecutionException in project jade-data-repo by DataBiosphere.

the class FireStoreDependencyDao method getDatasetSnapshotFileIds.

public List<String> getDatasetSnapshotFileIds(Dataset dataset, String snapshotId) throws InterruptedException {
    DatasetDataProject dataProject = dataLocationService.getProjectOrThrow(dataset);
    FireStoreProject fireStoreProject = FireStoreProject.get(dataProject.getGoogleProjectId());
    String dependencyCollectionName = getDatasetDependencyId(dataset.getId().toString());
    CollectionReference depColl = fireStoreProject.getFirestore().collection(dependencyCollectionName);
    Query query = depColl.whereEqualTo("snapshotId", snapshotId);
    ApiFuture<QuerySnapshot> querySnapshot = query.get();
    List<String> fileIds = new ArrayList<>();
    try {
        List<QueryDocumentSnapshot> documents = querySnapshot.get().getDocuments();
        for (DocumentSnapshot docSnap : documents) {
            FireStoreDependency fireStoreDependency = docSnap.toObject(FireStoreDependency.class);
            fileIds.add(fireStoreDependency.getFileId());
        }
        return fileIds;
    } catch (ExecutionException ex) {
        throw new FileSystemExecutionException("get file ids - execution exception", ex);
    }
}

Example 5 with FileSystemExecutionException

use of bio.terra.service.filedata.exception.FileSystemExecutionException in project jade-data-repo by DataBiosphere.

the class FireStoreDirectoryDao method lookupByFilePath.

private DocumentSnapshot lookupByFilePath(Firestore firestore, String collectionId, String lookupPath, Transaction xn) {
    try {
        DocumentReference docRef = firestore.collection(collectionId).document(encodePathAsFirestoreDocumentName(lookupPath));
        ApiFuture<DocumentSnapshot> docSnapFuture = xn.get(docRef);
        return docSnapFuture.get();
    } catch (InterruptedException ex) {
        Thread.currentThread().interrupt();
        throw new FileSystemExecutionException("lookupByEntryPath - execution interrupted", ex);
    } catch (AbortedException | ExecutionException ex) {
        throw handleExecutionException("lookupByEntryPath", ex);
    }
}