mirror of
https://github.com/clearml/clearml-server
synced 2025-01-31 19:06:55 +00:00
729 lines
25 KiB
Python
729 lines
25 KiB
Python
import hashlib
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import importlib
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import os
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import re
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from collections import defaultdict
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from datetime import datetime, timezone
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from functools import partial
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from io import BytesIO
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from itertools import chain
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from operator import attrgetter
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from os.path import splitext
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from pathlib import Path
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from typing import (
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Optional,
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Any,
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Type,
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Set,
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Dict,
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Sequence,
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Tuple,
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BinaryIO,
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Union,
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Mapping,
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)
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from urllib.parse import unquote, urlparse
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from zipfile import ZipFile, ZIP_BZIP2
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import dpath
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import mongoengine
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from boltons.iterutils import chunked_iter
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from furl import furl
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from mongoengine import Q
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from bll.event import EventBLL
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from bll.task.param_utils import (
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split_param_name,
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hyperparams_default_section,
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hyperparams_legacy_type,
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)
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from config import config
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from config.info import get_default_company
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from database.model import EntityVisibility
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from database.model.model import Model
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from database.model.project import Project
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from database.model.task.task import Task, ArtifactModes, TaskStatus
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from database.utils import get_options
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from tools import safe_get
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from utilities import json
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from .user import _ensure_backend_user
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class PrePopulate:
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event_bll = EventBLL()
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events_file_suffix = "_events"
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export_tag_prefix = "Exported:"
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export_tag = f"{export_tag_prefix} %Y-%m-%d %H:%M:%S"
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metadata_filename = "metadata.json"
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zip_args = dict(mode="w", compression=ZIP_BZIP2)
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artifacts_ext = ".artifacts"
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img_source_regex = re.compile(
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r"['\"]source['\"]:\s?['\"](https?://(?:localhost:8081|files.*?)/.*?)['\"]",
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flags=re.IGNORECASE,
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)
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class JsonLinesWriter:
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def __init__(self, file: BinaryIO):
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self.file = file
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self.empty = True
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def __enter__(self):
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self._write("[")
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return self
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def __exit__(self, exc_type, exc_value, exc_traceback):
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self._write("\n]")
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def _write(self, data: str):
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self.file.write(data.encode("utf-8"))
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def write(self, line: str):
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if not self.empty:
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self._write(",")
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self._write("\n" + line)
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self.empty = False
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@staticmethod
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def _get_last_update_time(entity) -> datetime:
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return getattr(entity, "last_update", None) or getattr(entity, "created")
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@classmethod
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def _check_for_update(
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cls, map_file: Path, entities: dict, metadata_hash: str
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) -> Tuple[bool, Sequence[str]]:
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if not map_file.is_file():
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return True, []
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files = []
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try:
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map_data = json.loads(map_file.read_text())
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files = map_data.get("files", [])
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for file in files:
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if not Path(file).is_file():
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return True, files
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new_times = {
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item.id: cls._get_last_update_time(item).replace(tzinfo=timezone.utc)
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for item in chain.from_iterable(entities.values())
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}
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old_times = map_data.get("entities", {})
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if set(new_times.keys()) != set(old_times.keys()):
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return True, files
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for id_, new_timestamp in new_times.items():
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if new_timestamp != old_times[id_]:
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return True, files
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if metadata_hash != map_data.get("metadata_hash", ""):
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return True, files
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except Exception as ex:
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print("Error reading map file. " + str(ex))
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return True, files
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return False, files
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@classmethod
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def _write_update_file(
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cls,
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map_file: Path,
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entities: dict,
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created_files: Sequence[str],
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metadata_hash: str,
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):
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map_file.write_text(
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json.dumps(
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dict(
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files=created_files,
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entities={
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entity.id: cls._get_last_update_time(entity)
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for entity in chain.from_iterable(entities.values())
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},
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metadata_hash=metadata_hash,
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)
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)
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)
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@staticmethod
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def _filter_artifacts(artifacts: Sequence[str]) -> Sequence[str]:
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def is_fileserver_link(a: str) -> bool:
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a = a.lower()
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if a.startswith("https://files."):
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return True
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if a.startswith("http"):
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parsed = urlparse(a)
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if parsed.scheme in {"http", "https"} and parsed.netloc.endswith(
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"8081"
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):
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return True
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return False
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fileserver_links = [a for a in artifacts if is_fileserver_link(a)]
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print(
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f"Found {len(fileserver_links)} files on the fileserver from {len(artifacts)} total"
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)
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return fileserver_links
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@classmethod
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def export_to_zip(
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cls,
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filename: str,
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experiments: Sequence[str] = None,
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projects: Sequence[str] = None,
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artifacts_path: str = None,
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task_statuses: Sequence[str] = None,
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tag_exported_entities: bool = False,
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metadata: Mapping[str, Any] = None,
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) -> Sequence[str]:
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if task_statuses and not set(task_statuses).issubset(get_options(TaskStatus)):
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raise ValueError("Invalid task statuses")
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file = Path(filename)
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entities = cls._resolve_entities(
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experiments=experiments, projects=projects, task_statuses=task_statuses
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)
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hash_ = hashlib.md5()
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if metadata:
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meta_str = json.dumps(metadata)
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hash_.update(meta_str.encode())
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metadata_hash = hash_.hexdigest()
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else:
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meta_str, metadata_hash = "", ""
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map_file = file.with_suffix(".map")
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updated, old_files = cls._check_for_update(
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map_file, entities=entities, metadata_hash=metadata_hash
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)
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if not updated:
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print(f"There are no updates from the last export")
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return old_files
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for old in old_files:
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old_path = Path(old)
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if old_path.is_file():
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old_path.unlink()
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with ZipFile(file, **cls.zip_args) as zfile:
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if metadata:
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zfile.writestr(cls.metadata_filename, meta_str)
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artifacts = cls._export(
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zfile,
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entities=entities,
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hash_=hash_,
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tag_entities=tag_exported_entities,
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)
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file_with_hash = file.with_name(f"{file.stem}_{hash_.hexdigest()}{file.suffix}")
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file.replace(file_with_hash)
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created_files = [str(file_with_hash)]
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artifacts = cls._filter_artifacts(artifacts)
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if artifacts and artifacts_path and os.path.isdir(artifacts_path):
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artifacts_file = file_with_hash.with_suffix(cls.artifacts_ext)
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with ZipFile(artifacts_file, **cls.zip_args) as zfile:
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cls._export_artifacts(zfile, artifacts, artifacts_path)
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created_files.append(str(artifacts_file))
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cls._write_update_file(
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map_file,
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entities=entities,
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created_files=created_files,
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metadata_hash=metadata_hash,
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)
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return created_files
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@classmethod
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def import_from_zip(
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cls,
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filename: str,
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artifacts_path: str,
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company_id: Optional[str] = None,
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user_id: str = "",
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user_name: str = "",
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):
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metadata = None
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with ZipFile(filename) as zfile:
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try:
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with zfile.open(cls.metadata_filename) as f:
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metadata = json.loads(f.read())
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meta_public = metadata.get("public")
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if company_id is None and meta_public is not None:
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company_id = "" if meta_public else get_default_company()
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if not user_id:
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meta_user_id = metadata.get("user_id", "")
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meta_user_name = metadata.get("user_name", "")
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user_id, user_name = meta_user_id, meta_user_name
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except Exception:
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pass
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if not user_id:
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user_id, user_name = "__allegroai__", "Allegro.ai"
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# Make sure we won't end up with an invalid company ID
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if company_id is None:
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company_id = ""
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# Always use a public user for pre-populated data
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user_id = _ensure_backend_user(
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user_id=user_id, user_name=user_name, company_id="",
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)
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cls._import(zfile, company_id, user_id, metadata)
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if artifacts_path and os.path.isdir(artifacts_path):
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artifacts_file = Path(filename).with_suffix(cls.artifacts_ext)
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if artifacts_file.is_file():
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print(f"Unzipping artifacts into {artifacts_path}")
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with ZipFile(artifacts_file) as zfile:
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zfile.extractall(artifacts_path)
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@classmethod
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def upgrade_zip(cls, filename) -> Sequence:
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hash_ = hashlib.md5()
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task_file = cls._get_base_filename(Task) + ".json"
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temp_file = Path("temp.zip")
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file = Path(filename)
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with ZipFile(file) as reader, ZipFile(temp_file, **cls.zip_args) as writer:
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for file_info in reader.filelist:
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if file_info.orig_filename == task_file:
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with reader.open(file_info) as f:
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content = cls._upgrade_tasks(f)
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else:
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content = reader.read(file_info)
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writer.writestr(file_info, content)
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hash_.update(content)
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base_file_name, _, old_hash = file.stem.rpartition("_")
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new_hash = hash_.hexdigest()
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if old_hash == new_hash:
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print(f"The file {filename} was not updated")
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temp_file.unlink()
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return []
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new_file = file.with_name(f"{base_file_name}_{new_hash}{file.suffix}")
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temp_file.replace(new_file)
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upadated = [str(new_file)]
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artifacts_file = file.with_suffix(cls.artifacts_ext)
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if artifacts_file.is_file():
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new_artifacts = new_file.with_suffix(cls.artifacts_ext)
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artifacts_file.replace(new_artifacts)
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upadated.append(str(new_artifacts))
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print(f"File {str(file)} replaced with {str(new_file)}")
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file.unlink()
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return upadated
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@staticmethod
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def _upgrade_task_data(task_data: dict):
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for old_param_field, new_param_field, default_section in (
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("execution/parameters", "hyperparams", hyperparams_default_section),
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("execution/model_desc", "configuration", None),
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):
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legacy = safe_get(task_data, old_param_field)
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if not legacy:
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continue
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for full_name, value in legacy.items():
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section, name = split_param_name(full_name, default_section)
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new_path = list(filter(None, (new_param_field, section, name)))
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if not safe_get(task_data, new_path):
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new_param = dict(
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name=name, type=hyperparams_legacy_type, value=str(value)
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)
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if section is not None:
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new_param["section"] = section
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dpath.new(task_data, new_path, new_param)
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dpath.delete(task_data, old_param_field)
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@classmethod
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def _upgrade_tasks(cls, f: BinaryIO) -> bytes:
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"""
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Build content array that contains fixed tasks from the passed file
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For each task the old execution.parameters and model.design are
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converted to the new structure.
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The fix is done on Task objects (not the dictionary) so that
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the fields are serialized back in the same order as they were in the original file
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"""
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with BytesIO() as temp:
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with cls.JsonLinesWriter(temp) as w:
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for line in cls.json_lines(f):
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task_data = Task.from_json(line).to_proper_dict()
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cls._upgrade_task_data(task_data)
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new_task = Task(**task_data)
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w.write(new_task.to_json())
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return temp.getvalue()
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@classmethod
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def update_featured_projects_order(cls):
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featured_order = config.get("services.projects.featured_order", [])
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if not featured_order:
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return
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def get_index(p: Project):
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for index, entry in enumerate(featured_order):
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if (
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entry.get("id", None) == p.id
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or entry.get("name", None) == p.name
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or ("name_regex" in entry and re.match(entry["name_regex"], p.name))
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):
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return index
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return 999
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for project in Project.get_many_public(projection=["id", "name"]):
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featured_index = get_index(project)
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Project.objects(id=project.id).update(featured=featured_index)
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@staticmethod
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def _resolve_type(
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cls: Type[mongoengine.Document], ids: Optional[Sequence[str]]
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) -> Sequence[Any]:
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ids = set(ids)
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items = list(cls.objects(id__in=list(ids)))
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resolved = {i.id for i in items}
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missing = ids - resolved
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for name_candidate in missing:
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results = list(cls.objects(name=name_candidate))
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if not results:
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print(f"ERROR: no match for `{name_candidate}`")
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exit(1)
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elif len(results) > 1:
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print(f"ERROR: more than one match for `{name_candidate}`")
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exit(1)
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items.append(results[0])
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return items
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@classmethod
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def _resolve_entities(
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cls,
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experiments: Sequence[str] = None,
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projects: Sequence[str] = None,
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task_statuses: Sequence[str] = None,
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) -> Dict[Type[mongoengine.Document], Set[mongoengine.Document]]:
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entities = defaultdict(set)
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if projects:
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print("Reading projects...")
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entities[Project].update(cls._resolve_type(Project, projects))
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print("--> Reading project experiments...")
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query = Q(
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project__in=list(set(filter(None, (p.id for p in entities[Project])))),
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system_tags__nin=[EntityVisibility.archived.value],
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)
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if task_statuses:
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query &= Q(status__in=list(set(task_statuses)))
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objs = Task.objects(query)
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entities[Task].update(o for o in objs if o.id not in (experiments or []))
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if experiments:
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print("Reading experiments...")
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entities[Task].update(cls._resolve_type(Task, experiments))
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print("--> Reading experiments projects...")
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objs = Project.objects(
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id__in=list(set(filter(None, (p.project for p in entities[Task]))))
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)
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project_ids = {p.id for p in entities[Project]}
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entities[Project].update(o for o in objs if o.id not in project_ids)
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model_ids = {
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model_id
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for task in entities[Task]
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for model_id in (task.output.model, task.execution.model)
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if model_id
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}
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if model_ids:
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print("Reading models...")
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entities[Model] = set(Model.objects(id__in=list(model_ids)))
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return entities
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@classmethod
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def _filter_out_export_tags(cls, tags: Sequence[str]) -> Sequence[str]:
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if not tags:
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return tags
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return [tag for tag in tags if not tag.startswith(cls.export_tag_prefix)]
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@classmethod
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def _cleanup_model(cls, model: Model):
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model.company = ""
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model.user = ""
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model.tags = cls._filter_out_export_tags(model.tags)
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|
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@classmethod
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def _cleanup_task(cls, task: Task):
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task.comment = "Auto generated by Allegro.ai"
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task.status_message = ""
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task.status_reason = ""
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task.user = ""
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task.company = ""
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task.tags = cls._filter_out_export_tags(task.tags)
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if task.output:
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task.output.destination = None
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|
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@classmethod
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def _cleanup_project(cls, project: Project):
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project.user = ""
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project.company = ""
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project.tags = cls._filter_out_export_tags(project.tags)
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|
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@classmethod
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def _cleanup_entity(cls, entity_cls, entity):
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if entity_cls == Task:
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cls._cleanup_task(entity)
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elif entity_cls == Model:
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cls._cleanup_model(entity)
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elif entity == Project:
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cls._cleanup_project(entity)
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@classmethod
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def _add_tag(cls, items: Sequence[Union[Project, Task, Model]], tag: str):
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try:
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for item in items:
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item.update(upsert=False, tags=sorted(item.tags + [tag]))
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except AttributeError:
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pass
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|
|
@classmethod
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def _export_task_events(
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cls, task: Task, base_filename: str, writer: ZipFile, hash_
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) -> Sequence[str]:
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artifacts = []
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filename = f"{base_filename}_{task.id}{cls.events_file_suffix}.json"
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print(f"Writing task events into {writer.filename}:{filename}")
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with BytesIO() as f:
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with cls.JsonLinesWriter(f) as w:
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scroll_id = None
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while True:
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res = cls.event_bll.get_task_events(
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task.company, task.id, scroll_id=scroll_id
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)
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if not res.events:
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break
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scroll_id = res.next_scroll_id
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for event in res.events:
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event_type = event.get("type")
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if event_type == "training_debug_image":
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url = cls._get_fixed_url(event.get("url"))
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if url:
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event["url"] = url
|
|
artifacts.append(url)
|
|
elif event_type == "plot":
|
|
plot_str: str = event.get("plot_str", "")
|
|
for match in cls.img_source_regex.findall(plot_str):
|
|
url = cls._get_fixed_url(match)
|
|
if match != url:
|
|
plot_str = plot_str.replace(match, url)
|
|
artifacts.append(url)
|
|
w.write(json.dumps(event))
|
|
data = f.getvalue()
|
|
hash_.update(data)
|
|
writer.writestr(filename, data)
|
|
|
|
return artifacts
|
|
|
|
@staticmethod
|
|
def _get_fixed_url(url: Optional[str]) -> Optional[str]:
|
|
if not (url and url.lower().startswith("s3://")):
|
|
return url
|
|
try:
|
|
fixed = furl(url)
|
|
fixed.scheme = "https"
|
|
fixed.host += ".s3.amazonaws.com"
|
|
return fixed.url
|
|
except Exception as ex:
|
|
print(f"Failed processing link {url}. " + str(ex))
|
|
return url
|
|
|
|
@classmethod
|
|
def _export_entity_related_data(
|
|
cls, entity_cls, entity, base_filename: str, writer: ZipFile, hash_
|
|
):
|
|
if entity_cls == Task:
|
|
return [
|
|
*cls._get_task_output_artifacts(entity),
|
|
*cls._export_task_events(entity, base_filename, writer, hash_),
|
|
]
|
|
|
|
if entity_cls == Model:
|
|
entity.uri = cls._get_fixed_url(entity.uri)
|
|
return [entity.uri] if entity.uri else []
|
|
|
|
return []
|
|
|
|
@classmethod
|
|
def _get_task_output_artifacts(cls, task: Task) -> Sequence[str]:
|
|
if not task.execution.artifacts:
|
|
return []
|
|
|
|
for a in task.execution.artifacts:
|
|
if a.mode == ArtifactModes.output:
|
|
a.uri = cls._get_fixed_url(a.uri)
|
|
|
|
return [
|
|
a.uri
|
|
for a in task.execution.artifacts
|
|
if a.mode == ArtifactModes.output and a.uri
|
|
]
|
|
|
|
@classmethod
|
|
def _export_artifacts(
|
|
cls, writer: ZipFile, artifacts: Sequence[str], artifacts_path: str
|
|
):
|
|
unique_paths = set(unquote(str(furl(artifact).path)) for artifact in artifacts)
|
|
print(f"Writing {len(unique_paths)} artifacts into {writer.filename}")
|
|
for path in unique_paths:
|
|
path = path.lstrip("/")
|
|
full_path = os.path.join(artifacts_path, path)
|
|
if os.path.isfile(full_path):
|
|
writer.write(full_path, path)
|
|
else:
|
|
print(f"Artifact {full_path} not found")
|
|
|
|
@staticmethod
|
|
def _get_base_filename(cls_: type):
|
|
return f"{cls_.__module__}.{cls_.__name__}"
|
|
|
|
@classmethod
|
|
def _export(
|
|
cls, writer: ZipFile, entities: dict, hash_, tag_entities: bool = False
|
|
) -> Sequence[str]:
|
|
"""
|
|
Export the requested experiments, projects and models and return the list of artifact files
|
|
Always do the export on sorted items since the order of items influence hash
|
|
"""
|
|
artifacts = []
|
|
now = datetime.utcnow()
|
|
for cls_ in sorted(entities, key=attrgetter("__name__")):
|
|
items = sorted(entities[cls_], key=attrgetter("id"))
|
|
if not items:
|
|
continue
|
|
base_filename = cls._get_base_filename(cls_)
|
|
for item in items:
|
|
artifacts.extend(
|
|
cls._export_entity_related_data(
|
|
cls_, item, base_filename, writer, hash_
|
|
)
|
|
)
|
|
filename = base_filename + ".json"
|
|
print(f"Writing {len(items)} items into {writer.filename}:{filename}")
|
|
with BytesIO() as f:
|
|
with cls.JsonLinesWriter(f) as w:
|
|
for item in items:
|
|
cls._cleanup_entity(cls_, item)
|
|
w.write(item.to_json())
|
|
data = f.getvalue()
|
|
hash_.update(data)
|
|
writer.writestr(filename, data)
|
|
|
|
if tag_entities:
|
|
cls._add_tag(items, now.strftime(cls.export_tag))
|
|
|
|
return artifacts
|
|
|
|
@staticmethod
|
|
def json_lines(file: BinaryIO):
|
|
for line in file:
|
|
clean = (
|
|
line.decode("utf-8")
|
|
.rstrip("\r\n")
|
|
.strip()
|
|
.lstrip("[")
|
|
.rstrip(",]")
|
|
.strip()
|
|
)
|
|
if not clean:
|
|
continue
|
|
yield clean
|
|
|
|
@classmethod
|
|
def _import(
|
|
cls,
|
|
reader: ZipFile,
|
|
company_id: str = "",
|
|
user_id: str = None,
|
|
metadata: Mapping[str, Any] = None,
|
|
):
|
|
"""
|
|
Import entities and events from the zip file
|
|
Start from entities since event import will require the tasks already in DB
|
|
"""
|
|
event_file_ending = cls.events_file_suffix + ".json"
|
|
entity_files = (
|
|
fi
|
|
for fi in reader.filelist
|
|
if not fi.orig_filename.endswith(event_file_ending)
|
|
and fi.orig_filename != cls.metadata_filename
|
|
)
|
|
event_files = (
|
|
fi for fi in reader.filelist if fi.orig_filename.endswith(event_file_ending)
|
|
)
|
|
for files, reader_func in (
|
|
(entity_files, partial(cls._import_entity, metadata=metadata or {})),
|
|
(event_files, cls._import_events),
|
|
):
|
|
for file_info in files:
|
|
with reader.open(file_info) as f:
|
|
full_name = splitext(file_info.orig_filename)[0]
|
|
print(f"Reading {reader.filename}:{full_name}...")
|
|
reader_func(f, full_name, company_id, user_id)
|
|
|
|
@classmethod
|
|
def _import_entity(
|
|
cls,
|
|
f: BinaryIO,
|
|
full_name: str,
|
|
company_id: str,
|
|
user_id: str,
|
|
metadata: Mapping[str, Any],
|
|
):
|
|
module_name, _, class_name = full_name.rpartition(".")
|
|
module = importlib.import_module(module_name)
|
|
cls_: Type[mongoengine.Document] = getattr(module, class_name)
|
|
print(f"Writing {cls_.__name__.lower()}s into database")
|
|
|
|
override_project_count = 0
|
|
for item in cls.json_lines(f):
|
|
doc = cls_.from_json(item, created=True)
|
|
if hasattr(doc, "user"):
|
|
doc.user = user_id
|
|
if hasattr(doc, "company"):
|
|
doc.company = company_id
|
|
if isinstance(doc, Project):
|
|
override_project_name = metadata.get("project_name", None)
|
|
if override_project_name:
|
|
if override_project_count:
|
|
override_project_name = (
|
|
f"{override_project_name} {override_project_count + 1}"
|
|
)
|
|
override_project_count += 1
|
|
doc.name = override_project_name
|
|
|
|
doc.logo_url = metadata.get("logo_url", None)
|
|
doc.logo_blob = metadata.get("logo_blob", None)
|
|
|
|
cls_.objects(company=company_id, name=doc.name, id__ne=doc.id).update(
|
|
set__name=f"{doc.name}_{datetime.utcnow().strftime('%Y-%m-%d_%H-%M-%S')}"
|
|
)
|
|
|
|
doc.save()
|
|
|
|
if isinstance(doc, Task):
|
|
cls.event_bll.delete_task_events(company_id, doc.id, allow_locked=True)
|
|
|
|
@classmethod
|
|
def _import_events(cls, f: BinaryIO, full_name: str, company_id: str, _):
|
|
_, _, task_id = full_name[0 : -len(cls.events_file_suffix)].rpartition("_")
|
|
print(f"Writing events for task {task_id} into database")
|
|
for events_chunk in chunked_iter(cls.json_lines(f), 1000):
|
|
events = [json.loads(item) for item in events_chunk]
|
|
cls.event_bll.add_events(
|
|
company_id, events=events, worker="", allow_locked_tasks=True
|
|
)
|