mirror of
https://github.com/clearml/clearml
synced 2025-02-01 01:26:49 +00:00
644 lines
25 KiB
Python
644 lines
25 KiB
Python
import os
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import sys
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from copy import copy
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from tempfile import mkstemp
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import attr
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import collections
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import logging
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import json
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from furl import furl
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from pathlib2 import Path
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from threading import Thread, Event
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from .util import get_command_output
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from ....backend_api import Session
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from ....debugging import get_logger
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from .detectors import GitEnvDetector, GitDetector, HgEnvDetector, HgDetector, Result as DetectionResult
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_logger = get_logger("Repository Detection")
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class ScriptInfoError(Exception):
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pass
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class ScriptRequirements(object):
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_max_requirements_size = 512 * 1024
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def __init__(self, root_folder):
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self._root_folder = root_folder
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def get_requirements(self, entry_point_filename=None):
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try:
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from ....utilities.pigar.reqs import get_installed_pkgs_detail
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from ....utilities.pigar.__main__ import GenerateReqs
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installed_pkgs = get_installed_pkgs_detail()
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gr = GenerateReqs(save_path='', project_path=self._root_folder, installed_pkgs=installed_pkgs,
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ignores=['.git', '.hg', '.idea', '__pycache__', '.ipynb_checkpoints',
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'site-packages', 'dist-packages'])
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reqs, try_imports, guess, local_pks = gr.extract_reqs(
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module_callback=ScriptRequirements.add_trains_used_packages, entry_point_filename=entry_point_filename)
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return self.create_requirements_txt(reqs, local_pks)
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except Exception:
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return '', ''
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@staticmethod
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def add_trains_used_packages(modules):
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# hack: forcefully insert storage modules if we have them
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# noinspection PyBroadException
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try:
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import boto3
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modules.add('boto3', 'trains.storage', 0)
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except Exception:
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pass
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# noinspection PyBroadException
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try:
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from google.cloud import storage
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modules.add('google_cloud_storage', 'trains.storage', 0)
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except Exception:
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pass
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# noinspection PyBroadException
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try:
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from azure.storage.blob import ContentSettings
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modules.add('azure_storage_blob', 'trains.storage', 0)
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except Exception:
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pass
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# bugfix, replace sklearn with scikit-learn name
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if 'sklearn' in modules:
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sklearn = modules.pop('sklearn', {})
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for fname, lines in sklearn.items():
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modules.add('scikit_learn', fname, lines)
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# if we have torch and it supports tensorboard, we should add that as well
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# (because it will not be detected automatically)
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if 'torch' in modules and 'tensorboard' not in modules:
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# noinspection PyBroadException
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try:
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# see if this version of torch support tensorboard
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import torch.utils.tensorboard
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import tensorboard
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modules.add('tensorboard', 'torch', 0)
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except Exception:
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pass
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# remove setuptools, we should not specify this module version. It is installed by default
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if 'setuptools' in modules:
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modules.pop('setuptools', {})
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# add forced requirements:
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# noinspection PyBroadException
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try:
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from ..task import Task
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for package, version in Task._force_requirements.items():
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modules.add(package, 'trains', 0)
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except Exception:
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pass
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return modules
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@staticmethod
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def create_requirements_txt(reqs, local_pks=None):
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# write requirements.txt
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try:
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conda_requirements = ''
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conda_prefix = os.environ.get('CONDA_PREFIX')
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if conda_prefix and not conda_prefix.endswith(os.path.sep):
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conda_prefix += os.path.sep
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if conda_prefix and sys.executable.startswith(conda_prefix):
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conda_packages_json = get_command_output(['conda', 'list', '--json'])
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conda_packages_json = json.loads(conda_packages_json)
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reqs_lower = {k.lower(): (k, v) for k, v in reqs.items()}
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for r in conda_packages_json:
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# check if this is a pypi package, if it is, leave it outside
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if not r.get('channel') or r.get('channel') == 'pypi':
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continue
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# check if we have it in our required packages
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name = r['name'].lower().replace('-', '_')
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# hack support pytorch/torch different naming convention
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if name == 'pytorch':
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name = 'torch'
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k, v = reqs_lower.get(name, (None, None))
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if k:
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conda_requirements += '{0} {1} {2}\n'.format(k, '==', v.version)
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except:
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conda_requirements = ''
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# add forced requirements:
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# noinspection PyBroadException
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try:
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from ..task import Task
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forced_packages = copy(Task._force_requirements)
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except Exception:
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forced_packages = {}
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# python version header
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requirements_txt = '# Python ' + sys.version.replace('\n', ' ').replace('\r', ' ') + '\n'
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if local_pks:
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requirements_txt += '\n# Local modules found - skipping:\n'
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for k, v in local_pks.sorted_items():
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requirements_txt += '# {0} == {1}\n'.format(k, v.version)
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# requirement summary
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requirements_txt += '\n'
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for k, v in reqs.sorted_items():
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version = v.version
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if k in forced_packages:
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forced_version = forced_packages.pop(k, None)
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if forced_version:
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version = forced_version
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# requirements_txt += ''.join(['# {0}\n'.format(c) for c in v.comments.sorted_items()])
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if k == '-e':
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requirements_txt += '{0} {1}\n'.format(k, version)
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elif v:
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requirements_txt += '{0} {1} {2}\n'.format(k, '==', version)
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else:
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requirements_txt += '{0}\n'.format(k)
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# add forced requirements that we could not find installed on the system
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for k in sorted(forced_packages.keys()):
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if forced_packages[k]:
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requirements_txt += '{0} {1} {2}\n'.format(k, '==', forced_packages[k])
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else:
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requirements_txt += '{0}\n'.format(k)
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requirements_txt_packages_only = \
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requirements_txt + '\n# Skipping detailed import analysis, it is too large\n'
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# requirements details (in comments)
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requirements_txt += '\n' + \
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'# Detailed import analysis\n' \
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'# **************************\n'
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if local_pks:
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for k, v in local_pks.sorted_items():
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requirements_txt += '\n'
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requirements_txt += '# IMPORT LOCAL PACKAGE {0}\n'.format(k)
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requirements_txt += ''.join(['# {0}\n'.format(c) for c in v.comments.sorted_items()])
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for k, v in reqs.sorted_items():
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requirements_txt += '\n'
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if k == '-e':
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requirements_txt += '# IMPORT PACKAGE {0} {1}\n'.format(k, v.version)
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else:
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requirements_txt += '# IMPORT PACKAGE {0}\n'.format(k)
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requirements_txt += ''.join(['# {0}\n'.format(c) for c in v.comments.sorted_items()])
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# make sure we do not exceed the size a size limit
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return (requirements_txt if len(requirements_txt) < ScriptRequirements._max_requirements_size
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else requirements_txt_packages_only,
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conda_requirements)
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class _JupyterObserver(object):
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_thread = None
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_exit_event = Event()
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_sync_event = Event()
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_sample_frequency = 30.
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_first_sample_frequency = 3.
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@classmethod
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def observer(cls, jupyter_notebook_filename):
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if cls._thread is not None:
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# order of signaling is important!
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cls._exit_event.set()
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cls._sync_event.set()
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cls._thread.join()
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cls._sync_event.clear()
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cls._exit_event.clear()
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cls._thread = Thread(target=cls._daemon, args=(jupyter_notebook_filename, ))
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cls._thread.daemon = True
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cls._thread.start()
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@classmethod
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def signal_sync(cls, *_):
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cls._sync_event.set()
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@classmethod
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def close(cls):
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if not cls._thread:
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return
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cls._exit_event.set()
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cls._sync_event.set()
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cls._thread.join()
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cls._thread = None
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@classmethod
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def _daemon(cls, jupyter_notebook_filename):
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from trains import Task
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# load jupyter notebook package
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# noinspection PyBroadException
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try:
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from nbconvert.exporters.script import ScriptExporter
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_script_exporter = ScriptExporter()
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except Exception:
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return
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# load pigar
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# noinspection PyBroadException
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try:
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from ....utilities.pigar.reqs import get_installed_pkgs_detail, file_import_modules
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from ....utilities.pigar.modules import ReqsModules
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from ....utilities.pigar.log import logger
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logger.setLevel(logging.WARNING)
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except Exception:
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file_import_modules = None
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# load IPython
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# noinspection PyBroadException
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try:
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from IPython import get_ipython
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except Exception:
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# should not happen
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get_ipython = None
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# setup local notebook files
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if jupyter_notebook_filename:
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notebook = Path(jupyter_notebook_filename)
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local_jupyter_filename = jupyter_notebook_filename
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else:
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notebook = None
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fd, local_jupyter_filename = mkstemp(suffix='.ipynb')
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os.close(fd)
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last_update_ts = None
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counter = 0
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prev_script_hash = None
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try:
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from ....version import __version__
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our_module = cls.__module__.split('.')[0], __version__
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except:
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our_module = None
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try:
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import re
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replace_ipython_pattern = re.compile('\\n([ \\t]*)get_ipython\(\)')
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except:
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replace_ipython_pattern = None
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# main observer loop, check if we need to exit
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while not cls._exit_event.wait(timeout=0.):
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# wait for timeout or sync event
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cls._sync_event.wait(cls._sample_frequency if counter else cls._first_sample_frequency)
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cls._sync_event.clear()
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counter += 1
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# noinspection PyBroadException
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try:
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# if there is no task connected, do nothing
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task = Task.current_task()
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if not task:
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continue
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# if we have a local file:
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if notebook:
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if not notebook.exists():
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continue
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# check if notebook changed
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if last_update_ts is not None and notebook.stat().st_mtime - last_update_ts <= 0:
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continue
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last_update_ts = notebook.stat().st_mtime
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else:
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# serialize notebook to a temp file
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# noinspection PyBroadException
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try:
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get_ipython().run_line_magic('notebook', local_jupyter_filename)
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except Exception as ex:
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continue
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# get notebook python script
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script_code, resources = _script_exporter.from_filename(local_jupyter_filename)
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current_script_hash = hash(script_code)
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if prev_script_hash and prev_script_hash == current_script_hash:
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continue
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# remove ipython direct access from the script code
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# we will not be able to run them anyhow
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if replace_ipython_pattern:
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script_code = replace_ipython_pattern.sub('\n# \g<1>get_ipython()', script_code)
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requirements_txt = ''
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conda_requirements = ''
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# parse jupyter python script and prepare pip requirements (pigar)
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# if backend supports requirements
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if file_import_modules and Session.check_min_api_version('2.2'):
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fmodules, _ = file_import_modules(notebook.parts[-1], script_code)
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fmodules = ScriptRequirements.add_trains_used_packages(fmodules)
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installed_pkgs = get_installed_pkgs_detail()
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# make sure we are in installed packages
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if our_module and (our_module[0] not in installed_pkgs):
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installed_pkgs[our_module[0]] = our_module
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reqs = ReqsModules()
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for name in fmodules:
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if name in installed_pkgs:
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pkg_name, version = installed_pkgs[name]
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reqs.add(pkg_name, version, fmodules[name])
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requirements_txt, conda_requirements = ScriptRequirements.create_requirements_txt(reqs)
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# update script
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prev_script_hash = current_script_hash
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data_script = task.data.script
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data_script.diff = script_code
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data_script.requirements = {'pip': requirements_txt, 'conda': conda_requirements}
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task._update_script(script=data_script)
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# update requirements
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task._update_requirements(requirements=requirements_txt)
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except Exception:
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pass
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class ScriptInfo(object):
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plugins = [GitEnvDetector(), HgEnvDetector(), HgDetector(), GitDetector()]
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""" Script info detection plugins, in order of priority """
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@classmethod
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def _jupyter_install_post_store_hook(cls, jupyter_notebook_filename):
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# noinspection PyBroadException
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try:
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if 'IPython' in sys.modules:
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from IPython import get_ipython
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if get_ipython():
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_JupyterObserver.observer(jupyter_notebook_filename)
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get_ipython().events.register('pre_run_cell', _JupyterObserver.signal_sync)
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except Exception:
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pass
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@classmethod
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def _get_jupyter_notebook_filename(cls):
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if not (sys.argv[0].endswith(os.path.sep + 'ipykernel_launcher.py') or
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sys.argv[0].endswith(os.path.join(os.path.sep, 'ipykernel', '__main__.py'))) \
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or len(sys.argv) < 3 or not sys.argv[2].endswith('.json'):
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return None
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# we can safely assume that we can import the notebook package here
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# noinspection PyBroadException
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try:
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from notebook.notebookapp import list_running_servers
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import requests
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current_kernel = sys.argv[2].split(os.path.sep)[-1].replace('kernel-', '').replace('.json', '')
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try:
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server_info = next(list_running_servers())
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except Exception:
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# on some jupyter notebook versions this function can crash on parsing the json file,
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# we will parse it manually here
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import ipykernel
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from glob import glob
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import json
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for f in glob(os.path.join(os.path.dirname(ipykernel.get_connection_file()), 'nbserver-*.json')):
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try:
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with open(f, 'r') as json_data:
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server_info = json.load(json_data)
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except:
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server_info = None
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if server_info:
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break
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try:
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r = requests.get(
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url=server_info['url'] + 'api/sessions',
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headers={'Authorization': 'token {}'.format(server_info.get('token', '')), })
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except requests.exceptions.SSLError:
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# disable SSL check warning
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from urllib3.exceptions import InsecureRequestWarning
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requests.packages.urllib3.disable_warnings(category=InsecureRequestWarning)
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# fire request
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r = requests.get(
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url=server_info['url'] + 'api/sessions',
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headers={'Authorization': 'token {}'.format(server_info.get('token', '')), }, verify=False)
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# enable SSL check warning
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import warnings
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warnings.simplefilter('default', InsecureRequestWarning)
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r.raise_for_status()
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notebooks = r.json()
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cur_notebook = None
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for n in notebooks:
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if n['kernel']['id'] == current_kernel:
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cur_notebook = n
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break
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notebook_path = cur_notebook['notebook'].get('path', '')
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notebook_name = cur_notebook['notebook'].get('name', '')
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is_google_colab = False
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# check if this is google.colab, then there is no local file
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# noinspection PyBroadException
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try:
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from IPython import get_ipython
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if get_ipython() and 'google.colab' in get_ipython().extension_manager.loaded:
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is_google_colab = True
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except Exception:
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pass
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if is_google_colab:
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script_entry_point = notebook_name
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local_ipynb_file = None
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else:
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# always slash, because this is from uri (so never backslash not even oon windows)
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entry_point_filename = notebook_path.split('/')[-1]
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# now we should try to find the actual file
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entry_point = (Path.cwd() / entry_point_filename).absolute()
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if not entry_point.is_file():
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entry_point = (Path.cwd() / notebook_path).absolute()
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# get local ipynb for observer
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local_ipynb_file = entry_point.as_posix()
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# now replace the .ipynb with .py
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# we assume we will have that file available with the Jupyter notebook plugin
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entry_point = entry_point.with_suffix('.py')
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script_entry_point = entry_point.as_posix()
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# install the post store hook,
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# notice that if we do not have a local file we serialize/write every time the entire notebook
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cls._jupyter_install_post_store_hook(local_ipynb_file)
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return script_entry_point
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except Exception:
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return None
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@classmethod
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def _get_entry_point(cls, repo_root, script_path):
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repo_root = Path(repo_root).absolute()
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try:
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# Use os.path.relpath as it calculates up dir movements (../)
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entry_point = os.path.relpath(str(script_path), str(Path.cwd()))
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except ValueError:
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# Working directory not under repository root
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entry_point = script_path.relative_to(repo_root)
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return Path(entry_point).as_posix()
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@classmethod
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def _get_working_dir(cls, repo_root):
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repo_root = Path(repo_root).absolute()
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try:
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return Path.cwd().relative_to(repo_root).as_posix()
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except ValueError:
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# Working directory not under repository root
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return os.path.curdir
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@classmethod
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def _get_script_code(cls, script_path):
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# noinspection PyBroadException
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try:
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with open(script_path, 'r') as f:
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script_code = f.read()
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return script_code
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except Exception:
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pass
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return ''
|
|
|
|
@classmethod
|
|
def _get_script_info(cls, filepaths, check_uncommitted=True, create_requirements=True, log=None):
|
|
jupyter_filepath = cls._get_jupyter_notebook_filename()
|
|
if jupyter_filepath:
|
|
scripts_path = [Path(os.path.normpath(jupyter_filepath)).absolute()]
|
|
else:
|
|
scripts_path = [Path(os.path.normpath(f)).absolute() for f in filepaths if f]
|
|
if all(not f.is_file() for f in scripts_path):
|
|
raise ScriptInfoError(
|
|
"Script file {} could not be found".format(scripts_path)
|
|
)
|
|
|
|
scripts_dir = [f.parent for f in scripts_path]
|
|
|
|
def _log(msg, *args, **kwargs):
|
|
if not log:
|
|
return
|
|
log.warning(
|
|
"Failed auto-detecting task repository: {}".format(
|
|
msg.format(*args, **kwargs)
|
|
)
|
|
)
|
|
|
|
plugin = next((p for p in cls.plugins if any(p.exists(d) for d in scripts_dir)), None)
|
|
repo_info = DetectionResult()
|
|
script_dir = scripts_dir[0]
|
|
script_path = scripts_path[0]
|
|
if not plugin:
|
|
log.info("No repository found, storing script code instead")
|
|
else:
|
|
try:
|
|
for i, d in enumerate(scripts_dir):
|
|
repo_info = plugin.get_info(str(d), include_diff=check_uncommitted)
|
|
if not repo_info.is_empty():
|
|
script_dir = d
|
|
script_path = scripts_path[i]
|
|
break
|
|
except Exception as ex:
|
|
_log("no info for {} ({})", scripts_dir, ex)
|
|
else:
|
|
if repo_info.is_empty():
|
|
_log("no info for {}", scripts_dir)
|
|
|
|
repo_root = repo_info.root or script_dir
|
|
if not plugin:
|
|
working_dir = '.'
|
|
entry_point = str(script_path.name)
|
|
else:
|
|
working_dir = cls._get_working_dir(repo_root)
|
|
entry_point = cls._get_entry_point(repo_root, script_path)
|
|
|
|
if check_uncommitted:
|
|
diff = cls._get_script_code(script_path.as_posix()) \
|
|
if not plugin or not repo_info.commit else repo_info.diff
|
|
else:
|
|
diff = ''
|
|
# if this is not jupyter, get the requirements.txt
|
|
requirements = ''
|
|
conda_requirements = ''
|
|
# create requirements if backend supports requirements
|
|
# if jupyter is present, requirements will be created in the background, when saving a snapshot
|
|
if not jupyter_filepath and Session.check_min_api_version('2.2'):
|
|
script_requirements = ScriptRequirements(
|
|
Path(repo_root).as_posix() if repo_info.url else script_path.as_posix())
|
|
if create_requirements:
|
|
requirements, conda_requirements = script_requirements.get_requirements()
|
|
else:
|
|
script_requirements = None
|
|
|
|
script_info = dict(
|
|
repository=furl(repo_info.url).remove(username=True, password=True).tostr(),
|
|
branch=repo_info.branch,
|
|
version_num=repo_info.commit,
|
|
entry_point=entry_point,
|
|
working_dir=working_dir,
|
|
diff=diff,
|
|
requirements={'pip': requirements, 'conda': conda_requirements} if requirements else None,
|
|
binary='python{}.{}'.format(sys.version_info.major, sys.version_info.minor),
|
|
repo_root=repo_root,
|
|
jupyter_filepath=jupyter_filepath,
|
|
)
|
|
|
|
messages = []
|
|
if repo_info.modified:
|
|
messages.append(
|
|
"======> WARNING! UNCOMMITTED CHANGES IN REPOSITORY {} <======".format(
|
|
script_info.get("repository", "")
|
|
)
|
|
)
|
|
|
|
if not any(script_info.values()):
|
|
script_info = None
|
|
|
|
return (ScriptInfoResult(script=script_info, warning_messages=messages),
|
|
script_requirements)
|
|
|
|
@classmethod
|
|
def get(cls, filepaths=None, check_uncommitted=True, create_requirements=True, log=None):
|
|
try:
|
|
if not filepaths:
|
|
filepaths = [sys.argv[0], ]
|
|
return cls._get_script_info(
|
|
filepaths=filepaths, check_uncommitted=check_uncommitted,
|
|
create_requirements=create_requirements, log=log)
|
|
except Exception as ex:
|
|
if log:
|
|
log.warning("Failed auto-detecting task repository: {}".format(ex))
|
|
return ScriptInfoResult(), None
|
|
|
|
@classmethod
|
|
def detect_running_module(cls, script_dict):
|
|
# noinspection PyBroadException
|
|
try:
|
|
# If this is jupyter, do not try to detect the running module, we know what we have.
|
|
if script_dict.get('jupyter_filepath'):
|
|
return script_dict
|
|
|
|
if '__main__' in sys.modules and vars(sys.modules['__main__'])['__package__']:
|
|
argvs = ''
|
|
git_root = os.path.abspath(script_dict['repo_root']) if script_dict['repo_root'] else None
|
|
for a in sys.argv[1:]:
|
|
if git_root and os.path.exists(a):
|
|
# check if common to project:
|
|
a_abs = os.path.abspath(a)
|
|
if os.path.commonpath([a_abs, git_root]) == git_root:
|
|
# adjust path relative to working dir inside git repo
|
|
a = ' ' + os.path.relpath(a_abs, os.path.join(git_root, script_dict['working_dir']))
|
|
argvs += ' {}'.format(a)
|
|
# update the script entry point to match the real argv and module call
|
|
script_dict['entry_point'] = '-m {}{}'.format(
|
|
vars(sys.modules['__main__'])['__package__'], (' ' + argvs) if argvs else '')
|
|
except Exception:
|
|
pass
|
|
return script_dict
|
|
|
|
@classmethod
|
|
def close(cls):
|
|
_JupyterObserver.close()
|
|
|
|
|
|
@attr.s
|
|
class ScriptInfoResult(object):
|
|
script = attr.ib(default=None)
|
|
warning_messages = attr.ib(factory=list)
|