import subprocess import time from subprocess import run from sys import platform import pytest import requests from elasticsearch import Elasticsearch from haystack.generator.transformers import Seq2SeqGenerator from haystack.knowledge_graph.graphdb import GraphDBKnowledgeGraph from milvus import Milvus import weaviate from haystack.document_store.weaviate import WeaviateDocumentStore from haystack.document_store.milvus import MilvusDocumentStore from haystack.generator.transformers import RAGenerator, RAGeneratorType from haystack.retriever.sparse import ElasticsearchFilterOnlyRetriever, ElasticsearchRetriever, TfidfRetriever from haystack.retriever.dense import DensePassageRetriever, EmbeddingRetriever from haystack import Document from haystack.document_store.elasticsearch import ElasticsearchDocumentStore from haystack.document_store.faiss import FAISSDocumentStore from haystack.document_store.memory import InMemoryDocumentStore from haystack.document_store.sql import SQLDocumentStore from haystack.reader.farm import FARMReader from haystack.reader.transformers import TransformersReader from haystack.summarizer.transformers import TransformersSummarizer from haystack.translator import TransformersTranslator def _sql_session_rollback(self, attr): """ Inject SQLDocumentStore at runtime to do a session rollback each time it is called. This allows to catch errors where an intended operation is still in a transaction, but not committed to the database. """ method = object.__getattribute__(self, attr) if callable(method): try: self.session.rollback() except AttributeError: pass return method SQLDocumentStore.__getattribute__ = _sql_session_rollback def pytest_collection_modifyitems(items): for item in items: if "generator" in item.nodeid: item.add_marker(pytest.mark.generator) elif "summarizer" in item.nodeid: item.add_marker(pytest.mark.summarizer) elif "tika" in item.nodeid: item.add_marker(pytest.mark.tika) elif "elasticsearch" in item.nodeid: item.add_marker(pytest.mark.elasticsearch) elif "graphdb" in item.nodeid: item.add_marker(pytest.mark.graphdb) elif "pipeline" in item.nodeid: item.add_marker(pytest.mark.pipeline) elif "slow" in item.nodeid: item.add_marker(pytest.mark.slow) elif "weaviate" in item.nodeid: item.add_marker(pytest.mark.weaviate) @pytest.fixture(scope="session") def elasticsearch_fixture(): # test if a ES cluster is already running. If not, download and start an ES instance locally. try: client = Elasticsearch(hosts=[{"host": "localhost", "port": "9200"}]) client.info() except: print("Starting Elasticsearch ...") status = subprocess.run( ['docker rm haystack_test_elastic'], shell=True ) status = subprocess.run( ['docker run -d --name haystack_test_elastic -p 9200:9200 -e "discovery.type=single-node" elasticsearch:7.9.2'], shell=True ) if status.returncode: raise Exception( "Failed to launch Elasticsearch. Please check docker container logs.") time.sleep(30) @pytest.fixture(scope="session") def milvus_fixture(): # test if a Milvus server is already running. If not, start Milvus docker container locally. # Make sure you have given > 6GB memory to docker engine try: milvus_server = Milvus(uri="tcp://localhost:19530", timeout=5, wait_timeout=5) milvus_server.server_status(timeout=5) except: print("Starting Milvus ...") status = subprocess.run(['docker run -d --name milvus_cpu_0.10.5 -p 19530:19530 -p 19121:19121 ' 'milvusdb/milvus:0.10.5-cpu-d010621-4eda95'], shell=True) time.sleep(40) @pytest.fixture(scope="session") def weaviate_fixture(): # test if a Weaviate server is already running. If not, start Weaviate docker container locally. # Make sure you have given > 6GB memory to docker engine try: weaviate_server = weaviate.Client(url='http://localhost:8080', timeout_config=(5, 15)) weaviate_server.is_ready() except: print("Starting Weaviate servers ...") status = subprocess.run( ['docker rm haystack_test_weaviate'], shell=True ) status = subprocess.run( ['docker run -d --name haystack_test_weaviate -p 8080:8080 semitechnologies/weaviate:1.4.0'], shell=True ) if status.returncode: raise Exception( "Failed to launch Weaviate. Please check docker container logs.") time.sleep(60) @pytest.fixture(scope="session") def graphdb_fixture(): # test if a GraphDB instance is already running. If not, download and start a GraphDB instance locally. try: kg = GraphDBKnowledgeGraph() # fail if not running GraphDB kg.delete_index() except: print("Starting GraphDB ...") status = subprocess.run( ['docker rm haystack_test_graphdb'], shell=True ) status = subprocess.run( ['docker run -d -p 7200:7200 --name haystack_test_graphdb docker-registry.ontotext.com/graphdb-free:9.4.1-adoptopenjdk11'], shell=True ) if status.returncode: raise Exception( "Failed to launch GraphDB. Please check docker container logs.") time.sleep(30) @pytest.fixture(scope="session") def tika_fixture(): try: tika_url = "http://localhost:9998/tika" ping = requests.get(tika_url) if ping.status_code != 200: raise Exception( "Unable to connect Tika. Please check tika endpoint {0}.".format(tika_url)) except: print("Starting Tika ...") status = subprocess.run( ['docker run -d --name tika -p 9998:9998 apache/tika:1.24.1'], shell=True ) if status.returncode: raise Exception( "Failed to launch Tika. Please check docker container logs.") time.sleep(30) @pytest.fixture(scope="session") def xpdf_fixture(tika_fixture): verify_installation = run(["pdftotext"], shell=True) if verify_installation.returncode == 127: if platform.startswith("linux"): platform_id = "linux" sudo_prefix = "sudo" elif platform.startswith("darwin"): platform_id = "mac" # For Mac, generally sudo need password in interactive console. # But most of the cases current user already have permission to copy to /user/local/bin. # Hence removing sudo requirement for Mac. sudo_prefix = "" else: raise Exception( """Currently auto installation of pdftotext is not supported on {0} platform """.format(platform) ) commands = """ wget --no-check-certificate https://dl.xpdfreader.com/xpdf-tools-{0}-4.03.tar.gz && tar -xvf xpdf-tools-{0}-4.03.tar.gz && {1} cp xpdf-tools-{0}-4.03/bin64/pdftotext /usr/local/bin""".format(platform_id, sudo_prefix) run([commands], shell=True) verify_installation = run(["pdftotext -v"], shell=True) if verify_installation.returncode == 127: raise Exception( """pdftotext is not installed. It is part of xpdf or poppler-utils software suite. You can download for your OS from here: https://www.xpdfreader.com/download.html.""" ) @pytest.fixture(scope="module") def rag_generator(): return RAGenerator( model_name_or_path="facebook/rag-token-nq", generator_type=RAGeneratorType.TOKEN ) @pytest.fixture(scope="module") def eli5_generator(): return Seq2SeqGenerator(model_name_or_path="yjernite/bart_eli5") @pytest.fixture(scope="module") def summarizer(): return TransformersSummarizer( model_name_or_path="google/pegasus-xsum", use_gpu=-1 ) @pytest.fixture(scope="module") def en_to_de_translator(): return TransformersTranslator( model_name_or_path="Helsinki-NLP/opus-mt-en-de", ) @pytest.fixture(scope="module") def de_to_en_translator(): return TransformersTranslator( model_name_or_path="Helsinki-NLP/opus-mt-de-en", ) @pytest.fixture(scope="module") def test_docs_xs(): return [ # current "dict" format for a document {"text": "My name is Carla and I live in Berlin", "meta": {"meta_field": "test1", "name": "filename1"}}, # meta_field at the top level for backward compatibility {"text": "My name is Paul and I live in New York", "meta_field": "test2", "name": "filename2"}, # Document object for a doc Document(text="My name is Christelle and I live in Paris", meta={"meta_field": "test3", "name": "filename3"}) ] @pytest.fixture(params=["farm", "transformers"], scope="module") def reader(request): if request.param == "farm": return FARMReader( model_name_or_path="distilbert-base-uncased-distilled-squad", use_gpu=False, top_k_per_sample=5, num_processes=0 ) if request.param == "transformers": return TransformersReader( model_name_or_path="distilbert-base-uncased-distilled-squad", tokenizer="distilbert-base-uncased", use_gpu=-1 ) # TODO Fix bug in test_no_answer_output when using # @pytest.fixture(params=["farm", "transformers"]) @pytest.fixture(params=["farm"], scope="module") def no_answer_reader(request): if request.param == "farm": return FARMReader( model_name_or_path="deepset/roberta-base-squad2", use_gpu=False, top_k_per_sample=5, no_ans_boost=0, return_no_answer=True, num_processes=0 ) if request.param == "transformers": return TransformersReader( model_name_or_path="deepset/roberta-base-squad2", tokenizer="deepset/roberta-base-squad2", use_gpu=-1, top_k_per_candidate=5 ) @pytest.fixture(scope="module") def prediction(reader, test_docs_xs): docs = [Document.from_dict(d) if isinstance(d, dict) else d for d in test_docs_xs] prediction = reader.predict(query="Who lives in Berlin?", documents=docs, top_k=5) return prediction @pytest.fixture(scope="module") def no_answer_prediction(no_answer_reader, test_docs_xs): docs = [Document.from_dict(d) if isinstance(d, dict) else d for d in test_docs_xs] prediction = no_answer_reader.predict(query="What is the meaning of life?", documents=docs, top_k=5) return prediction @pytest.fixture(params=["es_filter_only", "elasticsearch", "dpr", "embedding", "tfidf"]) def retriever(request, document_store): return get_retriever(request.param, document_store) @pytest.fixture(params=["es_filter_only", "elasticsearch", "dpr", "embedding", "tfidf"]) def retriever_with_docs(request, document_store_with_docs): return get_retriever(request.param, document_store_with_docs) def get_retriever(retriever_type, document_store): if retriever_type == "dpr": retriever = DensePassageRetriever(document_store=document_store, query_embedding_model="facebook/dpr-question_encoder-single-nq-base", passage_embedding_model="facebook/dpr-ctx_encoder-single-nq-base", use_gpu=False, embed_title=True) elif retriever_type == "tfidf": retriever = TfidfRetriever(document_store=document_store) retriever.fit() elif retriever_type == "embedding": retriever = EmbeddingRetriever( document_store=document_store, embedding_model="deepset/sentence_bert", use_gpu=False ) elif retriever_type == "retribert": retriever = EmbeddingRetriever(document_store=document_store, embedding_model="yjernite/retribert-base-uncased", model_format="retribert", use_gpu=False) elif retriever_type == "elasticsearch": retriever = ElasticsearchRetriever(document_store=document_store) elif retriever_type == "es_filter_only": retriever = ElasticsearchFilterOnlyRetriever(document_store=document_store) else: raise Exception(f"No retriever fixture for '{retriever_type}'") return retriever @pytest.fixture(params=["elasticsearch", "faiss", "memory", "sql", "milvus"]) def document_store_with_docs(request, test_docs_xs): document_store = get_document_store(request.param) document_store.write_documents(test_docs_xs) yield document_store document_store.delete_all_documents() @pytest.fixture(params=["elasticsearch", "faiss", "memory", "sql", "milvus"]) def document_store(request, test_docs_xs): vector_dim = request.node.get_closest_marker("vector_dim", pytest.mark.vector_dim(768)) document_store = get_document_store(request.param, vector_dim.args[0]) yield document_store document_store.delete_all_documents() def get_document_store(document_store_type, embedding_dim=768, embedding_field="embedding"): if document_store_type == "sql": document_store = SQLDocumentStore(url="sqlite://", index="haystack_test") elif document_store_type == "memory": document_store = InMemoryDocumentStore( return_embedding=True, embedding_dim=embedding_dim, embedding_field=embedding_field, index="haystack_test" ) elif document_store_type == "elasticsearch": # make sure we start from a fresh index client = Elasticsearch() client.indices.delete(index='haystack_test*', ignore=[404]) document_store = ElasticsearchDocumentStore( index="haystack_test", return_embedding=True, embedding_dim=embedding_dim, embedding_field=embedding_field ) elif document_store_type == "faiss": document_store = FAISSDocumentStore( vector_dim=embedding_dim, sql_url="sqlite://", return_embedding=True, embedding_field=embedding_field, index="haystack_test", ) return document_store elif document_store_type == "milvus": document_store = MilvusDocumentStore( vector_dim=embedding_dim, sql_url="sqlite://", return_embedding=True, embedding_field=embedding_field, index="haystack_test", ) _, collections = document_store.milvus_server.list_collections() for collection in collections: if collection.startswith("haystack_test"): document_store.milvus_server.drop_collection(collection) return document_store elif document_store_type == "weaviate": document_store = WeaviateDocumentStore( weaviate_url="http://localhost:8080", index="Haystacktest" ) document_store.weaviate_client.schema.delete_all() document_store._create_schema_and_index_if_not_exist() return document_store else: raise Exception(f"No document store fixture for '{document_store_type}'") return document_store