jambo6 / neuralrdes Goto Github PK
View Code? Open in Web Editor NEWCode for: "Neural Rough Differential Equations for Long Time Series", (ICML 2021)
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jingmouren soraxas surajitdb athon-millane kookseungji whysoseriousen zhouquant upstatepedro tbhacker rmallof cristovaoiglesias minhvt34 fmorenopino maxrubbyneuralrdes's Issues
Suggest to loosen the dependency on sacred
Hi, your project neuralRDEs requires "sacred==0.8.1" in its dependency. After analyzing the source code, we found that the following versions of sacred can also be suitable without affecting your project, i.e., sacred 0.8.0. Therefore, we suggest to loosen the dependency on sacred from "sacred==0.8.1" to "sacred>=0.8.0,<=0.8.1" to avoid any possible conflict for importing more packages or for downstream projects that may use neuralRDEs.
May I pull a request to further loosen the dependency on sacred?
By the way, could you please tell us whether such dependency analysis may be potentially helpful for maintaining dependencies easier during your development?
We also give our detailed analysis as follows for your reference:
Your project neuralRDEs directly uses 3 APIs from package sacred.
sacred.experiment.Experiment.__init__, sacred.ingredient.Ingredient.__init__, sacred.observers.file_storage.FileStorageObserver.__init__
Beginning from the 3 APIs above, 44 functions are then indirectly called, including 27 sacred's internal APIs and 17 outsider APIs. The specific call graph is listed as follows (neglecting some repeated function occurrences).
[/jambo6/neuralRDEs]
+--sacred.experiment.Experiment.__init__
| +--sacred.host_info.check_additional_host_info
| +--sacred.experiment.gather_command_line_options
| | +--sacred.utils.get_inheritors
| | +--warnings.warn
| +--inspect.stack
| +--os.path.basename
| +--sacred.ingredient.Ingredient.__init__
| | +--collections.OrderedDict
| | +--inspect.stack
| | +--os.path.dirname
| | +--os.path.abspath
| | +--sacred.dependencies.gather_sources_and_dependencies
| | | +--sacred.dependencies.get_main_file
| | | | +--os.path.abspath
| | | | +--sacred.dependencies.Source.create
| | | | | +--os.path.exists
| | | | | +--sacred.dependencies.get_py_file_if_possible
| | | | | | +--os.path.exists
| | | | | +--os.path.abspath
| | | | | +--sacred.dependencies.get_commit_if_possible
| | | | | | +--os.path.dirname
| | | | | | +--git.Repo
| | | | | | +--git.Repo.remote
| | | | | | +--git.Repo.is_dirty
| | | | | +--sacred.dependencies.Source.__init__
| | | | | +--sacred.dependencies.get_digest
| | | | | | +--hashlib.md5
| | | | +--os.path.dirname
| | | +--sacred.dependencies.PackageDependency.create
| | | | +--sacred.dependencies.PackageDependency.__init__
| +--sacred.ingredient.Ingredient.command
| | +--sacred.ingredient.Ingredient.capture
| | | +--sacred.config.captured_function.create_captured_function
| | | | +--sacred.config.signature.Signature.__init__
| | | | | +--sacred.config.signature.get_argspec
| | | | | | +--inspect.signature
| | | | | | +--collections.OrderedDict
| | | | +--sacred.config.captured_function.captured_function
| | | | | +--sacred.config.custom_containers.fallback_dict
| | | | | +--sacred.randomness.get_seed
| | | | | | +--random.randint
| | | | | +--sacred.randomness.create_rnd
| | | | | | +--random.Random
| | | | | +--time.time
| | | | | +--sacred.utils.ConfigError.track
| | | | | | +--sacred.utils.join_paths
| | | | | +--datetime.timedelta
| +--sacred.commands.print_named_configs
| | +--collections.OrderedDict
| | +--sacred.commands._format_named_configs
| | | +--sacred.commands._format_named_config
+--sacred.ingredient.Ingredient.__init__
+--sacred.observers.file_storage.FileStorageObserver.__init__
| +--pathlib.Path
| +--os.path.exists
| +--sacred.observers.file_storage.FileStorageObserver.initialize
We scan sacred's versions and observe that during its evolution between any version from [0.8.0] and 0.8.1, the changing functions (diffs being listed below) have none intersection with any function or API we mentioned above (either directly or indirectly called by this project).
diff: 0.8.1(original) 0.8.0
['sacred.observers.mongo.MongoObserver.insert', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver._determine_run_dir', 'sacred.serializer.NumpyGenericHandler.flatten', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.log_metrics', 'sacred.serializer.NumpyArrayHandler.flatten', 'sacred.observers.mongo.QueuedMongoObserver', 'sacred.serializer.PandasDataframeHandler', 'sacred.observers.mongo.QueuedMongoObserver.__init__', 'sacred.observers.gcs_observer._is_valid_bucket', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.interrupted_event', 'sacred.observers.gcs_observer.gcs_option', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.heartbeat_event', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.failed_event', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.artifact_event', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.resource_event', 'sacred.serializer.NumpyArrayHandler.restore', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver', 'sacred.experiment.Experiment', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.find_or_save', 'sacred.observers.queue.QueueObserver', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.save_file_to_base', 'sacred.serializer.NumpyArrayHandler', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.started_event', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver._objects_exist_in_dir', 'sacred.observers.mongo.QueueCompatibleMongoObserver.save', 'sacred.serializer.PandasDataframeHandler.flatten', 'sacred.observers.mongo.QueueCompatibleMongoObserver', 'sacred.observers.mongo.MongoObserver', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver._list_gcs_subdirs', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.__eq__', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.completed_event', 'sacred.serializer.NumpyGenericHandler.restore', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.save_directory', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.put_data', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.queued_event', 'sacred.serializer.NumpyGenericHandler', 'sacred.observers.queue.QueueObserver.__init__', 'sacred.observers.queue.QueueObserver._run', 'sacred.experiment.Experiment._check_command', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.save_cout', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.save_file', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.__init__', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.save_sources', 'sacred.serializer.PandasDataframeHandler.restore', 'sacred.observers.gcs_observer.gcs_join', 'sacred.observers.gcs_observer.GoogleCloudStorageObserver.save_json', 'sacred.observers.mongo.MongoObserver._try_to_detect_content_type']
As for other packages, the APIs of inspect, os, collections, pathlib, warnings, time, datetime, git, hashlib and random are called by sacred in the call graph and the dependencies on these packages also stay the same in our suggested versions, thus avoiding any outside conflict.
Therefore, we believe that it is quite safe to loose your dependency on sacred from "sacred==0.8.1" to "sacred>=0.8.0,<=0.8.1". This will improve the applicability of neuralRDEs and reduce the possibility of any further dependency conflict with other projects.
Batch size for eigenworms dataset
Why is the batch size for eigenworms 1024? There are only 131 samples in the train dataset and 128 samples in the test dataset, am I missing something?
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