dcicutils 8.14.2.1b2__tar.gz → 8.14.2.1b4__tar.gz
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- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/PKG-INFO +1 -1
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/structured_data.py +9 -1
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/pyproject.toml +1 -1
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/LICENSE.txt +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/README.rst +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/__init__.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/base.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/beanstalk_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/bundle_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/captured_output.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/cloudformation_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/codebuild_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/command_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/common.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/contribution_scripts.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/contribution_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/creds_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/data_readers.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/data_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/datetime_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/deployment_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/diff_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/docker_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/ecr_scripts.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/ecr_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/ecs_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/env_base.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/env_manager.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/env_scripts.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/env_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/env_utils_legacy.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/es_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/exceptions.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/ff_mocks.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/ff_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/file_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/function_cache_decorator.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/glacier_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/hack_for_elasticsearch_numpy_usage.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/http_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/jh_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/kibana/dashboards.json +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/kibana/readme.md +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/lang_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/license_policies/c4-infrastructure.jsonc +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/license_policies/c4-python-infrastructure.jsonc +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/license_policies/park-lab-common-server.jsonc +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/license_policies/park-lab-common.jsonc +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/license_policies/park-lab-gpl-pipeline.jsonc +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/license_policies/park-lab-pipeline.jsonc +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/license_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/log_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/misc_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/obfuscation_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/opensearch_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/portal_object_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/portal_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/progress_bar.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/project_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/qa_checkers.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/qa_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/redis_tools.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/redis_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/s3_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/schema_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/scripts/publish_to_pypi.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/scripts/run_license_checker.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/scripts/update_portal_object.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/scripts/view_portal_object.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/secrets_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/sheet_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/snapshot_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/ssl_certificate_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/submitr/progress_constants.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/submitr/ref_lookup_strategy.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/task_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/tmpfile_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/trace_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/validation_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/variant_utils.py +0 -0
- {dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/zip_utils.py +0 -0
@@ -58,6 +58,7 @@ class StructuredDataSet:
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norefs: bool = False, merge: bool = False,
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progress: Optional[Callable] = None,
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validator_hook: Optional[Callable] = None,
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+
validator_sheet_hook: Optional[Callable] = None,
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debug_sleep: Optional[str] = None) -> None:
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self._progress = progress if callable(progress) else None
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self._data = {}
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@@ -76,7 +77,8 @@ class StructuredDataSet:
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self._autoadd_properties = autoadd if isinstance(autoadd, dict) and autoadd else None
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self._norefs = True if norefs is True else False
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self._merge = True if merge is True else False # New merge functionality (2024-05-25)
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-
self._validator_hook = validator_hook if callable(validator_hook) else None
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self._validator_hook = validator_hook if callable(validator_hook) else None
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self._validator_sheet_hook = validator_sheet_hook if callable(validator_sheet_hook) else None
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self._debug_sleep = None
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if debug_sleep:
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try:
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@@ -287,6 +289,10 @@ class StructuredDataSet:
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self._load_json_file(file)
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elif file.endswith(".tar") or file.endswith(".zip"):
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self._load_packed_file(file)
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if (self._validator_hook and
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hasattr(self._validator_hook, "finish") and
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callable(finish_validator_hook := getattr(self._validator_hook, "finish"))): # noqa
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finish_validator_hook(self)
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def _load_packed_file(self, file: str) -> None:
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for file in unpack_files(file, suffixes=ACCEPTABLE_FILE_SUFFIXES):
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@@ -312,6 +318,8 @@ class StructuredDataSet:
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order = {Schema.type_name(key): index for index, key in enumerate(self._order)} if self._order else {}
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for sheet_name in sorted(excel.sheet_names, key=lambda key: order.get(Schema.type_name(key), sys.maxsize)):
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self._load_reader(excel.sheet_reader(sheet_name), type_name=Schema.type_name(sheet_name))
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if self._validator_sheet_hook:
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self._validator_sheet_hook(self, sheet_name, self.data[sheet_name])
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# TODO: Do we really need progress reporting for the below?
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# Check for unresolved reference errors which really are not because of ordering.
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# Yes such internal references will be handled correctly on actual database update via snovault.loadxl.
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[tool.poetry]
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name = "dcicutils"
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version = "8.14.2.
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version = "8.14.2.1b4" # TODO: To become 8.14.3
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description = "Utility package for interacting with the 4DN Data Portal and other 4DN resources"
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authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
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license = "MIT"
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{dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/hack_for_elasticsearch_numpy_usage.py
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{dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/license_policies/c4-infrastructure.jsonc
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{dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/license_policies/park-lab-common.jsonc
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{dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/license_policies/park-lab-gpl-pipeline.jsonc
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{dcicutils-8.14.2.1b2 → dcicutils-8.14.2.1b4}/dcicutils/license_policies/park-lab-pipeline.jsonc
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