eegdash 0.3.5.dev183002612__py3-none-any.whl → 0.3.6.dev182011805__py3-none-any.whl
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- eegdash/__init__.py +1 -1
- eegdash/api.py +137 -31
- eegdash/dataset.py +3 -1
- eegdash/dataset_summary.csv +256 -255
- {eegdash-0.3.5.dev183002612.dist-info → eegdash-0.3.6.dev182011805.dist-info}/METADATA +1 -1
- {eegdash-0.3.5.dev183002612.dist-info → eegdash-0.3.6.dev182011805.dist-info}/RECORD +9 -9
- {eegdash-0.3.5.dev183002612.dist-info → eegdash-0.3.6.dev182011805.dist-info}/WHEEL +0 -0
- {eegdash-0.3.5.dev183002612.dist-info → eegdash-0.3.6.dev182011805.dist-info}/licenses/LICENSE +0 -0
- {eegdash-0.3.5.dev183002612.dist-info → eegdash-0.3.6.dev182011805.dist-info}/top_level.txt +0 -0
eegdash/__init__.py
CHANGED
eegdash/api.py
CHANGED
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@@ -90,12 +90,16 @@ class EEGDash:
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) -> list[Mapping[str, Any]]:
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"""Find records in the MongoDB collection.
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This method
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This method supports four usage patterns:
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1. With a pre-built MongoDB query dictionary (positional argument):
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>>> eegdash.find({"dataset": "ds002718", "subject": {"$in": ["012", "013"]}})
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2. With user-friendly keyword arguments for simple and multi-value queries:
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>>> eegdash.find(dataset="ds002718", subject="012")
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>>> eegdash.find(dataset="ds002718", subject=["012", "013"])
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3. With an explicit empty query to return all documents:
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>>> eegdash.find({}) # fetches all records (use with care)
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4. By combining a raw query with kwargs (merged via logical AND):
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>>> eegdash.find({"dataset": "ds002718"}, subject=["012", "013"]) # yields {"$and":[{"dataset":"ds002718"}, {"subject":{"$in":["012","013"]}}]}
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Parameters
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----------
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@@ -110,26 +114,34 @@ class EEGDash:
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list:
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A list of DB records (string-keyed dictionaries) that match the query.
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Raises
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------
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ValueError
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If both a `query` dictionary and keyword arguments are provided.
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"""
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final_query: dict[str, Any] | None = None
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# Accept explicit empty dict {} to mean "match all"
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raw_query = query if isinstance(query, dict) else None
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kwargs_query = self._build_query_from_kwargs(**kwargs) if kwargs else None
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# Determine presence, treating {} as a valid raw query
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has_raw = isinstance(raw_query, dict)
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has_kwargs = kwargs_query is not None
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if has_raw and has_kwargs:
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# Detect conflicting constraints on the same field (e.g., task specified
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# differently in both places) and raise a clear error instead of silently
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# producing an empty result.
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self._raise_if_conflicting_constraints(raw_query, kwargs_query)
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# Merge with logical AND so both constraints apply
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if raw_query: # non-empty dict adds constraints
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final_query = {"$and": [raw_query, kwargs_query]}
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else: # {} adds nothing; use kwargs_query only
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final_query = kwargs_query
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elif has_raw:
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# May be {} meaning match-all, or a non-empty dict
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final_query = raw_query
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elif has_kwargs:
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final_query = kwargs_query
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else:
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#
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# This can be dangerous, so we can either allow it or raise an error.
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# Let's require an explicit query for safety.
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# Avoid accidental full scans
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raise ValueError(
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"find() requires a query dictionary or at least one keyword argument. "
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"To find all documents, use find({})."
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return record
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def _build_query_from_kwargs(self, **kwargs) -> dict[str, Any]:
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"""
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"""Build and validate a MongoDB query from user-friendly keyword arguments.
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Improvements:
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- Reject None values and empty/whitespace-only strings
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- For list/tuple/set values: strip strings, drop None/empties, deduplicate, and use `$in`
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- Preserve scalars as exact matches
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"""
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# 1. Validate that all provided keys are allowed for querying
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unknown_fields = set(kwargs.keys()) - self._ALLOWED_QUERY_FIELDS
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# 2. Construct the query dictionary
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query = {}
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for key, value in kwargs.items():
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# None is not a valid constraint
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if value is None:
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raise ValueError(
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f"Received None for query parameter '{key}'. Provide a concrete value."
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)
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# Handle list-like values as multi-constraints
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if isinstance(value, (list, tuple, set)):
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cleaned: list[Any] = []
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for item in value:
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if item is None:
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continue
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if isinstance(item, str):
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item = item.strip()
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if not item:
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continue
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cleaned.append(item)
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# Deduplicate while preserving order
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cleaned = list(dict.fromkeys(cleaned))
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if not cleaned:
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raise ValueError(
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f"Received an empty list for query parameter '{key}'. This is not supported."
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query[key] = {"$in": value}
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query[key] = {"$in": cleaned}
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else:
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#
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# Scalars: trim strings and validate
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if isinstance(value, str):
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value = value.strip()
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if not value:
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raise ValueError(
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f"Received an empty string for query parameter '{key}'."
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)
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query[key] = value
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return query
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# --- Query merging and conflict detection helpers ---
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def _extract_simple_constraint(self, query: dict[str, Any], key: str):
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"""Extract a simple constraint for a given key from a query dict.
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Supports only top-level equality (key: value) and $in (key: {"$in": [...]})
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constraints. Returns a tuple (kind, value) where kind is "eq" or "in". If the
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key is not present or uses other operators, returns None.
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"""
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if not isinstance(query, dict) or key not in query:
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return None
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val = query[key]
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if isinstance(val, dict):
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if "$in" in val and isinstance(val["$in"], (list, tuple)):
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return ("in", list(val["$in"]))
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return None # unsupported operator shape for conflict checking
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else:
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return ("eq", val)
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def _raise_if_conflicting_constraints(
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self, raw_query: dict[str, Any], kwargs_query: dict[str, Any]
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) -> None:
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"""Raise ValueError if both query sources define incompatible constraints.
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We conservatively check only top-level fields with simple equality or $in
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constraints. If a field appears in both queries and constraints are mutually
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exclusive, raise an explicit error to avoid silent empty result sets.
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"""
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if not raw_query or not kwargs_query:
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return
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# Only consider fields we generally allow; skip meta operators like $and
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raw_keys = set(raw_query.keys()) & self._ALLOWED_QUERY_FIELDS
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kw_keys = set(kwargs_query.keys()) & self._ALLOWED_QUERY_FIELDS
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dup_keys = raw_keys & kw_keys
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for key in dup_keys:
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rc = self._extract_simple_constraint(raw_query, key)
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kc = self._extract_simple_constraint(kwargs_query, key)
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if rc is None or kc is None:
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# If either side is non-simple, skip conflict detection for this key
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continue
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r_kind, r_val = rc
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k_kind, k_val = kc
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# Normalize to sets when appropriate for simpler checks
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if r_kind == "eq" and k_kind == "eq":
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if r_val != k_val:
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raise ValueError(
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f"Conflicting constraints for '{key}': query={r_val!r} vs kwargs={k_val!r}"
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)
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elif r_kind == "in" and k_kind == "eq":
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if k_val not in r_val:
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raise ValueError(
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f"Conflicting constraints for '{key}': query in {r_val!r} vs kwargs={k_val!r}"
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)
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elif r_kind == "eq" and k_kind == "in":
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if r_val not in k_val:
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raise ValueError(
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f"Conflicting constraints for '{key}': query={r_val!r} vs kwargs in {k_val!r}"
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)
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elif r_kind == "in" and k_kind == "in":
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if len(set(r_val).intersection(k_val)) == 0:
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raise ValueError(
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f"Conflicting constraints for '{key}': disjoint sets {r_val!r} and {k_val!r}"
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)
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def load_eeg_data_from_s3(self, s3path: str) -> xr.DataArray:
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"""Load an EEGLAB .set file from an AWS S3 URI and return it as an xarray DataArray.
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# If list is provided, let _build_query_from_kwargs turn it into $in later.
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query_kwargs.setdefault("dataset", dataset)
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# Allow mixing raw DB query with additional keyword filters. Both will be
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# merged by EEGDash.find() (logical AND), so we do not raise here.
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try:
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if records is not None:
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**base_dataset_kwargs,
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elif query or query_kwargs:
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elif query is not None or query_kwargs:
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# This is the DB query path that we are improving
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datasets = self.find_datasets(
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query=query,
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"""
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datasets: list[EEGDashBaseDataset] = []
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# Build records using either a raw query OR keyword filters, but not both.
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# Note: callers may accidentally pass an empty dict for `query` along with
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# kwargs. In that case, treat it as if no query was provided and rely on kwargs.
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# Always delegate merging of raw query + kwargs to EEGDash.find
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self.records = self.eeg_dash.find(query, **query_kwargs)
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for record in self.records:
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eegdash/dataset.py
CHANGED
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if self.mini:
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# Disallow mixing subject selection with mini=True since mini already
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# applies a predefined subject subset.
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if (query and "subject" in query) or ("subject" in kwargs):
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raise ValueError(
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"Query using the parameters `subject` with the class EEGChallengeDataset and `mini==True` is not possible."
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"Please don't use the `subject` selection twice."
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eegdash/dataset_summary.csv
CHANGED
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dataset,n_records,n_subjects,n_tasks,nchans_set,sampling_freqs,duration_hours_total
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ds002718,18,18,1,74,250,14.844
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ds005505,1342,136,10,129,500,125.366
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ds004745,6,6,1,,1000,0.0
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ds005514,2885,295,10,129,500,213.008
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ds005512,2320,257,10,129,500,196.205
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ds005510,1227,135,10,129,500,112.464
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ds005511,3100,381,10,"6,129",500,285.629
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ds005509,3326,330,10,129,500,274.559
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ds005508,3342,324,10,129,500,269.281
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ds005507,1812,184,10,129,500,168.649
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ds005506,1405,150,10,129,500,127.896
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1
|
+
dataset,n_records,n_subjects,n_tasks,nchans_set,sampling_freqs,duration_hours_total,size,size_bytes,s3_item_count
|
|
2
|
+
ds002718,18,18,1,74,250,14.844,4.31 GB,4624315408,0
|
|
3
|
+
ds005505,1342,136,10,129,500,125.366,103.11 GB,110708824369,0
|
|
4
|
+
ds004745,6,6,1,,1000,0.0,242.08 MB,253839725,0
|
|
5
|
+
ds005514,2885,295,10,129,500,213.008,185.03 GB,198677728665,0
|
|
6
|
+
ds005512,2320,257,10,129,500,196.205,157.19 GB,168778507427,0
|
|
7
|
+
ds005510,1227,135,10,129,500,112.464,90.80 GB,97492961757,0
|
|
8
|
+
ds005511,3100,381,10,"6,129",500,285.629,244.83 GB,262883881898,0
|
|
9
|
+
ds005509,3326,330,10,129,500,274.559,224.17 GB,240701124393,0
|
|
10
|
+
ds005508,3342,324,10,129,500,269.281,229.81 GB,246753736933,0
|
|
11
|
+
ds005507,1812,184,10,129,500,168.649,139.37 GB,149646718160,0
|
|
12
|
+
ds005506,1405,150,10,129,500,127.896,111.88 GB,120126449650,0
|
|
13
|
+
test,2,1,1,64,500,20.556,0 B,0,0
|
|
14
|
+
ds004854,1,1,1,64,128,0.535,79.21 MB,83057080,0
|
|
15
|
+
ds004853,1,1,1,64,128,0.535,79.21 MB,83057080,0
|
|
16
|
+
ds004844,68,17,1,64,1024,21.252,22.33 GB,23976121966,0
|
|
17
|
+
ds004843,92,14,1,64,256,29.834,7.66 GB,8229205795,0
|
|
18
|
+
ds004842,102,14,1,64,256,20.102,5.21 GB,5589054270,0
|
|
19
|
+
ds004852,1,1,1,64,128,0.535,79.21 MB,83057106,0
|
|
20
|
+
ds004851,1,1,1,64,128,0.535,56.59 GB,60765064414,0
|
|
21
|
+
ds004850,1,1,1,64,128,0.535,79.21 MB,83057078,0
|
|
22
|
+
ds004855,1,1,1,64,128,0.535,79.21 MB,83057076,0
|
|
23
|
+
ds004849,1,1,1,64,128,0.535,79.21 MB,83057084,0
|
|
24
|
+
ds004841,147,20,1,64,256,29.054,7.31 GB,7846934401,0
|
|
25
|
+
ds004661,17,17,1,64,128,10.137,1.40 GB,1505577392,0
|
|
26
|
+
ds004660,42,21,1,32,"2048,512",23.962,7.25 GB,7782408710,0
|
|
27
|
+
ds004657,119,24,1,64,"1024,8192",27.205,43.06 GB,46237302701,0
|
|
28
|
+
ds004362,1526,109,1,64,"128,160",48.592,11.14 GB,11961862159,0
|
|
29
|
+
ds004010,24,24,1,64,1000,26.457,23.14 GB,24844863976,0
|
|
30
|
+
ds002181,226,226,1,125,500,7.676,150.89 MB,158222084,0
|
|
31
|
+
ds004554,16,16,1,99,1000,0.024,8.79 GB,9432865762,0
|
|
32
|
+
ds005697,50,50,1,"65,69",1000,77.689,66.58 GB,71486411402,0
|
|
33
|
+
ds004350,240,24,5,64,256,41.265,26.83 GB,28810754598,0
|
|
34
|
+
ds004785,17,17,1,32,500,0.019,351.17 MB,368224136,0
|
|
35
|
+
ds004504,88,88,1,19,500,19.608,5.38 GB,5780997160,0
|
|
36
|
+
ds004635,55,55,1,129,1000,20.068,30.56 GB,32817659781,0
|
|
37
|
+
ds005787,448,19,1,"64,66","1000,500",23.733,27.09 GB,29087512003,0
|
|
38
|
+
ds005079,60,1,15,65,500,3.25,1.68 GB,1809231997,0
|
|
39
|
+
ds005342,32,32,1,17,250,33.017,2.03 GB,2181610593,0
|
|
40
|
+
ds005034,100,25,2,129,1000,37.525,61.36 GB,65885315479,0
|
|
41
|
+
ds002680,350,14,1,31,1000,21.244,9.22 GB,9902152149,0
|
|
42
|
+
ds003805,1,1,1,19,500,0.033,16.96 MB,17781347,0
|
|
43
|
+
ds003838,130,65,2,63,1000,136.757,253.29 GB,271965704312,0
|
|
44
|
+
ds002691,20,20,1,32,250,6.721,776.76 MB,814491068,0
|
|
45
|
+
ds003690,375,75,3,"64,66",500,46.771,21.46 GB,23043491552,0
|
|
46
|
+
ds004040,4,2,1,64,512,4.229,11.59 GB,12440304224,0
|
|
47
|
+
ds003061,39,13,1,79,256,8.196,2.26 GB,2421951821,0
|
|
48
|
+
ds005672,3,3,1,"65,69",1000,4.585,4.23 GB,4545641306,0
|
|
49
|
+
ds005410,81,81,1,63,1000,22.976,19.76 GB,21213481224,0
|
|
50
|
+
ds003753,25,25,1,64,500,10.104,4.62 GB,4965253148,0
|
|
51
|
+
ds005565,24,24,1,,500,11.436,2.62 GB,2816607296,0
|
|
52
|
+
ds002893,52,49,1,33,"250,250.0293378038558",36.114,7.70 GB,8263047991,0
|
|
53
|
+
ds002578,2,2,1,256,256,1.455,1.33 GB,1429254677,0
|
|
54
|
+
ds005089,36,36,1,63,1000,68.82,68.01 GB,73021312961,0
|
|
55
|
+
ds003822,25,25,1,64,500,12.877,5.82 GB,6248744522,0
|
|
56
|
+
ds003670,62,25,1,32,2000,72.772,97.53 GB,104721234854,0
|
|
57
|
+
ds005048,35,35,1,,250,5.203,355.91 MB,373200880,0
|
|
58
|
+
ds004574,146,146,1,"63,64,66",500,31.043,13.48 GB,14470034208,0
|
|
59
|
+
ds004519,40,40,1,62,250,0.067,12.56 GB,13486848019,0
|
|
60
|
+
ds004602,546,182,3,128,"250,500",87.11,73.91 GB,79364456958,0
|
|
61
|
+
ds004784,6,1,6,128,512,0.518,10.82 GB,11621460277,0
|
|
62
|
+
ds004771,61,61,1,34,256,0.022,1.36 GB,1462195517,0
|
|
63
|
+
ds003518,137,110,1,64,500,89.888,39.51 GB,42423490194,0
|
|
64
|
+
ds005207,39,20,1,"6,10,12,14,15,16,17,18","128,250",422.881,69.12 GB,74214619739,0
|
|
65
|
+
ds005866,60,60,1,,500,15.976,3.57 GB,3837211623,0
|
|
66
|
+
ds003523,221,91,1,64,500,84.586,37.54 GB,40304852370,0
|
|
67
|
+
ds004347,48,24,1,64,"128,512",6.389,2.69 GB,2890549319,0
|
|
68
|
+
ds004588,42,42,1,24,300,4.957,601.76 MB,630994652,0
|
|
69
|
+
ds005811,448,19,1,62,"1000,500",23.733,24.12 GB,25902600444,0
|
|
70
|
+
ds003987,69,23,1,64,500.0930232558139,52.076,26.41 GB,28362707915,0
|
|
71
|
+
ds004317,50,50,1,60,500,37.767,18.29 GB,19639199743,0
|
|
72
|
+
ds004033,36,18,2,64,500,42.645,19.81 GB,21270391452,0
|
|
73
|
+
ds004315,50,50,1,60,500,21.104,9.81 GB,10532856899,0
|
|
74
|
+
ds003474,122,122,1,64,500,36.61,16.64 GB,17867805967,0
|
|
75
|
+
ds003509,84,56,1,64,500,48.535,22.34 GB,23988721823,0
|
|
76
|
+
ds005868,48,48,1,,500,13.094,2.93 GB,3146417813,0
|
|
77
|
+
ds003516,25,25,1,47,500,22.57,13.46 GB,14451393616,0
|
|
78
|
+
ds004942,62,62,1,65,1000,28.282,25.05 GB,26899933549,0
|
|
79
|
+
ds004348,18,9,2,34,200,35.056,12.30 GB,13210476025,0
|
|
80
|
+
ds004625,543,32,9,120,500,28.397,62.46 GB,67069111978,0
|
|
81
|
+
ds003517,34,17,1,64,500,13.273,6.48 GB,6952992399,0
|
|
82
|
+
ds004368,40,39,1,63,128,0.033,997.14 MB,1045574811,0
|
|
83
|
+
ds004584,149,149,1,"63,64,66",500,6.641,2.87 GB,3078216874,0
|
|
84
|
+
ds003506,84,56,1,64,500,35.381,16.21 GB,17400039992,0
|
|
85
|
+
ds003570,40,40,1,64,2048,26.208,36.12 GB,38783075272,0
|
|
86
|
+
ds003490,75,50,1,64,500,12.76,5.85 GB,6276775630,0
|
|
87
|
+
ds004117,85,23,1,69,"1000,250,500,500.059",15.941,5.80 GB,6230776574,0
|
|
88
|
+
ds004505,25,25,1,120,250,30.398,522.56 GB,561092363916,0
|
|
89
|
+
ds004580,147,147,1,"63,64,66",500,36.514,15.84 GB,17008438640,0
|
|
90
|
+
ds004532,137,110,1,64,500,49.651,22.09 GB,23719572304,0
|
|
91
|
+
ds004902,218,71,2,61,"500,5000",18.118,8.29 GB,8898600609,0
|
|
92
|
+
ds004295,26,26,1,66,"1024,512",34.313,31.51 GB,33831372141,0
|
|
93
|
+
ds003519,54,27,1,64,500,20.504,8.96 GB,9623156762,0
|
|
94
|
+
ds003458,23,23,1,64,500,10.447,4.72 GB,5065250805,0
|
|
95
|
+
ds003004,34,34,1,"134,180,189,196,201,206,207,208,209,211,212,213,214,215,218,219,220,221,222,223,224,226,227,229,231,232,235",256,49.072,35.63 GB,38255333087,0
|
|
96
|
+
ds004200,20,20,1,37,1000,14.123,7.21 GB,7740555648,0
|
|
97
|
+
ds004015,36,36,1,18,500,47.29,6.03 GB,6475870225,0
|
|
98
|
+
ds004595,53,53,1,64,500,17.078,7.89 GB,8470863296,0
|
|
99
|
+
ds004626,52,52,1,68,1000,21.359,19.87 GB,21336341431,0
|
|
100
|
+
ds004475,30,30,1,"113,115,118,119,120,122,123,124,125,126,127,128",512,26.899,112.74 GB,121053900746,0
|
|
101
|
+
ds004515,54,54,1,64,500,20.61,9.48 GB,10177384081,0
|
|
102
|
+
ds004883,516,172,3,128,500,137.855,122.80 GB,131858855599,0
|
|
103
|
+
ds003739,120,30,4,128,256,20.574,10.94 GB,11742611182,0
|
|
104
|
+
ds004389,260,26,4,42,10000,30.932,376.50 GB,404264486093,0
|
|
105
|
+
ds004367,40,40,1,68,1200,24.81,27.98 GB,30039343808,0
|
|
106
|
+
ds004369,41,41,1,4,500,37.333,8.01 GB,8596739356,0
|
|
107
|
+
ds004579,139,139,1,"63,64,66",500,55.703,24.12 GB,25896737812,0
|
|
108
|
+
ds005416,23,23,1,64,1000,24.68,21.30 GB,22869325264,0
|
|
109
|
+
ds001785,54,18,3,63,"1000,1024",14.644,27.86 GB,29915397068,0
|
|
110
|
+
ds001971,273,20,1,108,512,46.183,31.98 GB,34339201543,0
|
|
111
|
+
ds004388,399,40,3,67,10000,43.327,682.54 GB,732876226489,0
|
|
112
|
+
ds003478,243,122,1,64,500,23.57,10.65 GB,11430531312,0
|
|
113
|
+
ds004306,15,12,1,124,1024,18.183,79.11 GB,84945921180,0
|
|
114
|
+
ds005305,165,165,1,64,"2048,512",14.136,6.41 GB,6887595053,0
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Author-email: Young Truong <dt.young112@gmail.com>, Arnaud Delorme <adelorme@gmail.com>, Aviv Dotan <avivd220@gmail.com>, Oren Shriki <oren70@gmail.com>, Bruno Aristimunha <b.aristimunha@gmail.com>
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|
+
eegdash-0.3.6.dev182011805.dist-info/licenses/LICENSE,sha256=asisR-xupy_NrQBFXnx6yqXeZcYWLvbAaiETl25iXT0,931
|
|
27
|
+
eegdash-0.3.6.dev182011805.dist-info/METADATA,sha256=jBWyMgXrjtrbTGvALa7gKU0TpsUcVQoByszJ8xS-TdQ,9932
|
|
28
|
+
eegdash-0.3.6.dev182011805.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
|
|
29
|
+
eegdash-0.3.6.dev182011805.dist-info/top_level.txt,sha256=zavO69HQ6MyZM0aQMR2zUS6TAFc7bnN5GEpDpOpFZzU,8
|
|
30
|
+
eegdash-0.3.6.dev182011805.dist-info/RECORD,,
|
|
File without changes
|
{eegdash-0.3.5.dev183002612.dist-info → eegdash-0.3.6.dev182011805.dist-info}/licenses/LICENSE
RENAMED
|
File without changes
|
|
File without changes
|