gget/utils.py:0: error: Item "NavigableString" of "Tag | NavigableString | None" has no attribute "get"  [union-attr]
gget/utils.py:0: error: Item "None" of "Tag | NavigableString | None" has no attribute "get"  [union-attr]
gget/utils.py:0: error: Item "list[str]" of "str | list[str] | Any | None" has no attribute "split"  [union-attr]
gget/utils.py:0: error: Item "None" of "str | list[str] | Any | None" has no attribute "split"  [union-attr]
gget/utils.py:0: error: Incompatible types in assignment (expression has type "str", variable has type "bool")  [assignment]
gget/utils.py:0: error: Incompatible types in assignment (expression has type "int", variable has type "bool")  [assignment]
gget/utils.py:0: error: Unsupported operand types for + ("bool" and "str")  [operator]
gget/utils.py:0: error: Argument 1 to "append" of "list" has incompatible type "bool"; expected "Literal[True]"  [arg-type]
gget/utils.py:0: error: Incompatible return value type (got "tuple[list[str], list[Literal[True]]]", expected "tuple[list[str], list[str]]")  [return-value]
gget/utils.py:0: error: Incompatible types in assignment (expression has type "list[str]", variable has type "Index[str]")  [assignment]
gget/utils.py:0: error: Incompatible types in assignment (expression has type "list[str]", variable has type "Index[str]")  [assignment]
gget/utils.py:0: error: Incompatible types in assignment (expression has type "ndarray[tuple[Any, ...], dtype[Any]]", variable has type "list[Any]")  [assignment]
gget/utils.py:0: error: Incompatible types in assignment (expression has type "str", variable has type "list[Any]")  [assignment]
gget/utils.py:0: error: Incompatible types in assignment (expression has type "list[ndarray[tuple[int], dtype[Any]] | ExtensionArray]", target has type "str | bytes | date | datetime | timedelta | <7 more items> | complex | integer[Any] | floating[Any] | complexfloating[Any, Any] | NAType | NaTType | None | Sequence[str | bytes | date | datetime | timedelta | <7 more items> | complex | integer[Any] | floating[Any] | complexfloating[Any, Any] | NAType | NaTType | None] | Sequence[Sequence[str | bytes | date | datetime | timedelta | <7 more items> | complex | integer[Any] | floating[Any] | complexfloating[Any, Any] | NAType | NaTType | None]] | Mapping[Any, str | bytes | date | datetime | timedelta | <7 more items> | complex | integer[Any] | floating[Any] | complexfloating[Any, Any] | NAType | NaTType | None] | ExtensionArray | ndarray[tuple[Any, ...], dtype[Any]] | IndexOpsMixin[Any, Any] | DataFrame")  [assignment]
gget/utils.py:0: error: Incompatible types in assignment (expression has type "list[ndarray[tuple[int], dtype[Any]] | ExtensionArray]", target has type "str | bytes | date | datetime | timedelta | <7 more items> | complex | integer[Any] | floating[Any] | complexfloating[Any, Any] | NAType | NaTType | None | Sequence[str | bytes | date | datetime | timedelta | <7 more items> | complex | integer[Any] | floating[Any] | complexfloating[Any, Any] | NAType | NaTType | None] | Sequence[Sequence[str | bytes | date | datetime | timedelta | <7 more items> | complex | integer[Any] | floating[Any] | complexfloating[Any, Any] | NAType | NaTType | None]] | Mapping[Any, str | bytes | date | datetime | timedelta | <7 more items> | complex | integer[Any] | floating[Any] | complexfloating[Any, Any] | NAType | NaTType | None] | ExtensionArray | ndarray[tuple[Any, ...], dtype[Any]] | IndexOpsMixin[Any, Any] | DataFrame")  [assignment]
gget/utils.py:0: error: Item "None" of "Tag | None" has no attribute "findAll"  [union-attr]
gget/utils.py:0: error: Item "None" of "Tag | None" has no attribute "findAll"  [union-attr]
gget/utils.py:0: error: Missing return statement  [return]
gget/utils.py:0: error: Item "None" of "Tag | None" has no attribute "findAll"  [union-attr]
gget/utils.py:0: error: Item "None" of "Tag | None" has no attribute "findAll"  [union-attr]
gget/utils.py:0: error: Item "None" of "Tag | None" has no attribute "findAll"  [union-attr]
gget/utils.py:0: error: Argument 1 to "sorted" has incompatible type "list[list[Any]]"; expected "Iterable[str]"  [arg-type]
gget/gget_search.py:0: error: Return value expected  [return-value]
gget/gget_search.py:0: error: Incompatible types in assignment (expression has type "list[Never]", variable has type "str")  [assignment]
gget/gget_search.py:0: error: "str" has no attribute "append"  [attr-defined]
gget/gget_search.py:0: error: "Series[Any]" not callable  [operator]
gget/gget_search.py:0: error: "Series[Any]" not callable  [operator]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "lower"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_ref.py:0: error: Item "None" of "str | None" has no attribute "split"  [union-attr]
gget/gget_opentargets.py:0: error: Incompatible types in assignment (expression has type "int", target has type "str")  [assignment]
gget/gget_mutate.py:0: error: Argument 1 to "read_fasta" has incompatible type "str | list[str]"; expected "str"  [arg-type]
gget/gget_mutate.py:0: error: Incompatible types in assignment (expression has type "DataFrame", variable has type "str | list[str]")  [assignment]
gget/gget_mutate.py:0: error: "str" has no attribute "columns"  [attr-defined]
gget/gget_mutate.py:0: error: Incompatible types in assignment (expression has type "DataFrame", variable has type "str | list[str]")  [assignment]
gget/gget_mutate.py:0: error: "str" has no attribute "columns"  [attr-defined]
gget/gget_mutate.py:0: error: Incompatible types in assignment (expression has type "DataFrame", variable has type "str | list[str]")  [assignment]
gget/gget_mutate.py:0: error: Incompatible types in assignment (expression has type "DataFrame", variable has type "str | list[str]")  [assignment]
gget/gget_mutate.py:0: error: Incompatible types in assignment (expression has type "DataFrame", variable has type "str | list[str]")  [assignment]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "isna"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Item "str" of "str | list[str]" has no attribute "dropna"  [union-attr]
gget/gget_mutate.py:0: error: Item "list[str]" of "str | list[str]" has no attribute "dropna"  [union-attr]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "apply"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Incompatible types in assignment (expression has type "DataFrame", variable has type "str | list[str]")  [assignment]
gget/gget_mutate.py:0: error: Argument 1 to "add_mutation_type" has incompatible type "str | list[str]"; expected "DataFrame"  [arg-type]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "map"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "isin"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "values"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Item "str" of "str | list[str]" has no attribute "dropna"  [union-attr]
gget/gget_mutate.py:0: error: Item "list[str]" of "str | list[str]" has no attribute "dropna"  [union-attr]
gget/gget_mutate.py:0: error: Item "str" of "str | list[str]" has no attribute "shape"  [union-attr]
gget/gget_mutate.py:0: error: Item "list[str]" of "str | list[str]" has no attribute "shape"  [union-attr]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "str"  [call-overload]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "str | Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "str"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "str"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "str"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "str"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "str"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | Any")  [index]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "str"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "isna"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "dropna"  [union-attr]
gget/gget_mutate.py:0: error: Item "str" of "str | list[str]" has no attribute "empty"  [union-attr]
gget/gget_mutate.py:0: error: Item "list[str]" of "str | list[str]" has no attribute "empty"  [union-attr]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "str"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "str | Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Item "str" of "str | list[str]" has no attribute "loc"  [union-attr]
gget/gget_mutate.py:0: error: Item "list[str]" of "str | list[str]" has no attribute "loc"  [union-attr]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "isna"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "list[str]", "Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "list[str]"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "astype"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "list[str]" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: Unsupported operand types for - (likely involving Union)  [operator]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "int | Any"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: Unsupported operand types for - (likely involving Union)  [operator]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "int | Any"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "apply"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Item "bool" of "bool | Any" has no attribute "sum"  [union-attr]
gget/gget_mutate.py:0: error: "str" has no attribute "empty"  [attr-defined]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported left operand type for - ("str")  [operator]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported left operand type for - ("str")  [operator]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "str"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "isna"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "list[str]" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "empty"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: Unsupported operand types for - ("str" and "int")  [operator]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "combine"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported operand types for + ("str" and "int")  [operator]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "min"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "list[str]" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Item "None" of "str | None" has no attribute "endswith"  [union-attr]
gget/gget_mutate.py:0: error: "str" has no attribute "columns"  [attr-defined]
gget/gget_mutate.py:0: error: Incompatible types in assignment (expression has type "DataFrame", variable has type "str | list[str]")  [assignment]
gget/gget_mutate.py:0: error: Argument 1 to "merge_gtf_transcript_locations_into_cosmic_csv" has incompatible type "str"; expected "DataFrame"  [arg-type]
gget/gget_mutate.py:0: error: Argument "gtf_transcript_id_column" to "merge_gtf_transcript_locations_into_cosmic_csv" has incompatible type "str | None"; expected "str"  [arg-type]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: Unsupported operand types for - ("str" and "int")  [operator]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "max"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "list[str]" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "min"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "list[str]" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "progress_apply"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "apply"  [attr-defined]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "fillna"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "fillna"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "bool" has no attribute "any"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "bool" has no attribute "any"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: "str" has no attribute "loc"  [attr-defined]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "sum"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported operand type for ~ ("str")  [operator]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "apply"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "max"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported operand types for < ("str" and "int")  [operator]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported operand types for >= ("str" and "int")  [operator]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "str"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported operand types for > ("str" and "int")  [operator]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported operand types for <= ("str" and "int")  [operator]
gget/gget_mutate.py:0: error: "str" has no attribute "drop"  [attr-defined]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Argument 1 to "cut" has incompatible type "str | Any"; expected "Series[Timestamp]"  [arg-type]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Argument "bins" to "cut" has incompatible type "range"; expected "int | Sequence[datetime64[Any] | Timestamp] | IntervalIndex[Interval[Timestamp]] | DatetimeIndex | Series[Timestamp]"  [arg-type]
gget/gget_mutate.py:0: error: Item "str" of "str | list[str]" has no attribute "shape"  [union-attr]
gget/gget_mutate.py:0: error: Item "list[str]" of "str | list[str]" has no attribute "shape"  [union-attr]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "progress_apply"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Argument "end" to "translate_sequence" has incompatible type "Any | int | str"; expected "int"  [arg-type]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "apply"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Argument "end" to "translate_sequence" has incompatible type "Any | int | str"; expected "int"  [arg-type]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "progress_apply"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Argument "end" to "translate_sequence" has incompatible type "Any | int | str"; expected "int"  [arg-type]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "apply"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Argument "end" to "translate_sequence" has incompatible type "Any | int | str"; expected "int"  [arg-type]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Item "str" of "str | list[str]" has no attribute "columns"  [union-attr]
gget/gget_mutate.py:0: error: Item "list[str]" of "str | list[str]" has no attribute "columns"  [union-attr]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "int"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | list[str]" has no attribute "columns"  [union-attr]
gget/gget_mutate.py:0: error: Item "list[str]" of "str | list[str]" has no attribute "columns"  [union-attr]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "str | Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "list[str]"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "list[str]" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "groupby"  [union-attr]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "groupby"  [union-attr]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "apply"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "str"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "Any"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported operand types for + (likely involving Union)  [operator]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str | list[str]")  [index]
gget/gget_mutate.py:0: error: No overload variant of "__setitem__" of "list" matches argument types "str", "str | Any"  [call-overload]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Argument 1 to "replace" of "str" has incompatible type "int"; expected "str"  [arg-type]
gget/gget_mutate.py:0: error: Argument 2 to "replace" of "str" has incompatible type "float"; expected "str"  [arg-type]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Item "str" of "str | Any" has no attribute "sum"  [union-attr]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Item "str" of "str | list[str]" has no attribute "drop"  [union-attr]
gget/gget_mutate.py:0: error: Item "list[str]" of "str | list[str]" has no attribute "drop"  [union-attr]
gget/gget_mutate.py:0: error: Item "bool" of "bool | Any" has no attribute "sum"  [union-attr]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: No overload variant of "__getitem__" of "list" matches argument type "str"  [call-overload]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "str"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "to_csv"  [attr-defined]
gget/gget_mutate.py:0: error: Unsupported target for indexed assignment ("str")  [index]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "values"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: Invalid index type "list[str]" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_mutate.py:0: error: "str" has no attribute "values"  [attr-defined]
gget/gget_mutate.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_info.py:0: error: Incompatible types in assignment (expression has type "list[str]", variable has type "Index[str]")  [assignment]
gget/gget_info.py:0: error: Item "None" of "Tag | NavigableString | None" has no attribute "text"  [union-attr]
gget/gget_info.py:0: error: Item "None" of "Tag | NavigableString | None" has no attribute "text"  [union-attr]
gget/gget_info.py:0: error: Item "NavigableString" of "Tag | NavigableString | None" has no attribute "get"  [union-attr]
gget/gget_info.py:0: error: Item "None" of "Tag | NavigableString | None" has no attribute "get"  [union-attr]
gget/gget_info.py:0: error: Incompatible types in assignment (expression has type "str | list[str] | Any | None", variable has type "float")  [assignment]
gget/gget_info.py:0: error: Item "None" of "Tag | NavigableString | None" has no attribute "find"  [union-attr]
gget/gget_info.py:0: error: Unexpected keyword argument "string" for "find" of "str"  [call-arg]
gget/gget_info.py:0: error: Item "None" of "Tag | NavigableString | int | Any | None" has no attribute "find_next_sibling"  [union-attr]
gget/gget_info.py:0: error: Item "int" of "Tag | NavigableString | int | Any | None" has no attribute "find_next_sibling"  [union-attr]
gget/gget_info.py:0: error: Item "None" of "Tag | NavigableString | Any | None" has no attribute "text"  [union-attr]
gget/gget_info.py:0: error: Incompatible types in assignment (expression has type "str | Any", variable has type "float")  [assignment]
gget/gget_info.py:0: error: Item "None" of "Tag | NavigableString | None" has no attribute "find"  [union-attr]
gget/gget_info.py:0: error: Unexpected keyword argument "string" for "find" of "str"  [call-arg]
gget/gget_info.py:0: error: Item "None" of "Tag | NavigableString | int | Any | None" has no attribute "find_next_sibling"  [union-attr]
gget/gget_info.py:0: error: Item "int" of "Tag | NavigableString | int | Any | None" has no attribute "find_next_sibling"  [union-attr]
gget/gget_info.py:0: error: Item "None" of "Tag | NavigableString | Any | None" has no attribute "text"  [union-attr]
gget/gget_info.py:0: error: Incompatible types in assignment (expression has type "list[str]", variable has type "Index[str]")  [assignment]
gget/gget_info.py:0: error: Incompatible types in assignment (expression has type "list[str]", variable has type "Index[str]")  [assignment]
gget/gget_info.py:0: error: Incompatible types in assignment (expression has type "str | Any", variable has type "list[Any]")  [assignment]
gget/gget_info.py:0: error: Argument 1 to "append" of "list" has incompatible type "float"; expected "str"  [arg-type]
gget/gget_info.py:0: error: Argument 1 to "append" of "list" has incompatible type "float"; expected "str"  [arg-type]
gget/gget_info.py:0: error: Argument 1 to "append" of "list" has incompatible type "float"; expected "str"  [arg-type]
gget/gget_gpt.py:0: error: Return value expected  [return-value]
gget/gget_g2p.py:0: error: Argument "params" to "get" has incompatible type "dict[str, object]"; expected "SupportsItems[str | bytes | int | float, str | bytes | int | float | Iterable[str | bytes | int | float] | None] | tuple[str | bytes | int | float, str | bytes | int | float | Iterable[str | bytes | int | float] | None] | Iterable[tuple[str | bytes | int | float, str | bytes | int | float | Iterable[str | bytes | int | float] | None]] | str | bytes | None"  [arg-type]
gget/gget_g2p.py:0: error: Unused "type: ignore" comment  [unused-ignore]
gget/gget_g2p.py:0: error: Unsupported operand types for + ("slice" and "int")  [operator]
gget/gget_g2p.py:0: error: Argument 1 to "insert" of "DataFrame" has incompatible type "int | ndarray[tuple[Any, ...], dtype[signedinteger[Any]]]"; expected "int"  [arg-type]
gget/gget_cbio.py:0: error: Cannot assign to a method  [method-assign]
gget/gget_cbio.py:0: error: "type[DataFrame]" has no attribute "applymap"  [attr-defined]
gget/gget_cbio.py:0: note: By default the bodies of untyped functions are not checked, consider using --check-untyped-defs  [annotation-unchecked]
gget/gget_cbio.py:0: error: "Series[Any]" not callable  [operator]
gget/gget_cbio.py:0: note: By default the bodies of untyped functions are not checked, consider using --check-untyped-defs  [annotation-unchecked]
gget/gget_cbio.py:0: note: By default the bodies of untyped functions are not checked, consider using --check-untyped-defs  [annotation-unchecked]
gget/gget_cbio.py:0: note: By default the bodies of untyped functions are not checked, consider using --check-untyped-defs  [annotation-unchecked]
gget/gget_cbio.py:0: note: By default the bodies of untyped functions are not checked, consider using --check-untyped-defs  [annotation-unchecked]
gget/gget_cbio.py:0: note: By default the bodies of untyped functions are not checked, consider using --check-untyped-defs  [annotation-unchecked]
gget/gget_cbio.py:0: note: By default the bodies of untyped functions are not checked, consider using --check-untyped-defs  [annotation-unchecked]
gget/gget_blat.py:0: error: Return value expected  [return-value]
gget/gget_blat.py:0: error: Return value expected  [return-value]
gget/gget_blast.py:0: error: Missing return statement  [return]
gget/gget_blast.py:0: error: Incompatible types in assignment (expression has type "None", variable has type "bool")  [assignment]
gget/gget_blast.py:0: error: Incompatible types in assignment (expression has type "str", variable has type "bool")  [assignment]
gget/gget_blast.py:0: error: Incompatible types in assignment (expression has type "None", variable has type "bool")  [assignment]
gget/gget_blast.py:0: error: Incompatible types in assignment (expression has type "str", variable has type "bool")  [assignment]
gget/gget_blast.py:0: error: Return value expected  [return-value]
gget/gget_blast.py:0: error: Return value expected  [return-value]
gget/gget_blast.py:0: error: Return value expected  [return-value]
gget/gget_blast.py:0: error: Return value expected  [return-value]
gget/gget_bgee.py:0: error: Argument 1 to "_bgee_orthologs" has incompatible type "str | list[str]"; expected "str"  [arg-type]
gget/compile.py:0: error: Item "None" of "IO[bytes] | None" has no attribute "read"  [union-attr]
gget/compile.py:0: error: Item "None" of "IO[bytes] | None" has no attribute "read"  [union-attr]
gget/gget_setup.py:0: error: Item "None" of "IO[bytes] | None" has no attribute "read"  [union-attr]
gget/gget_setup.py:0: error: Item "None" of "IO[bytes] | None" has no attribute "read"  [union-attr]
gget/gget_setup.py:0: error: Item "None" of "IO[bytes] | None" has no attribute "read"  [union-attr]
gget/gget_setup.py:0: error: Item "None" of "IO[bytes] | None" has no attribute "read"  [union-attr]
gget/gget_seq.py:0: error: Return value expected  [return-value]
gget/gget_seq.py:0: error: Argument 2 to "rest_query" has incompatible type "dict[str, list[str]]"; expected "str"  [arg-type]
gget/gget_seq.py:0: error: Incompatible types in assignment (expression has type "str", variable has type "dict[str, list[str]]")  [assignment]
gget/gget_seq.py:0: error: Argument 2 to "rest_query" has incompatible type "dict[str, list[str]]"; expected "str"  [arg-type]
gget/gget_muscle.py:0: error: Value of type variable "AnyStr" of "abspath" cannot be "str | list[str]"  [type-var]
gget/gget_muscle.py:0: error: Item "list[str]" of "str | list[str]" has no attribute "replace"  [union-attr]
gget/gget_muscle.py:0: error: Item "None" of "IO[bytes] | None" has no attribute "read"  [union-attr]
gget/gget_muscle.py:0: error: Argument 1 to "Popen" has incompatible type "list[str | list[str]]"; expected "str | bytes | PathLike[str] | PathLike[bytes] | Sequence[str | bytes | PathLike[str] | PathLike[bytes]]"  [arg-type]
gget/gget_muscle.py:0: error: Item "None" of "IO[bytes] | None" has no attribute "read"  [union-attr]
gget/gget_muscle.py:0: error: Argument 1 to "remove" has incompatible type "str | list[str]"; expected "str | bytes | PathLike[str] | PathLike[bytes]"  [arg-type]
gget/gget_enrichr.py:0: error: Item "None" of "DataFrame | None" has no attribute "index"  [union-attr]
gget/gget_enrichr.py:0: error: Item "None" of "DataFrame | None" has no attribute "loc"  [union-attr]
gget/gget_enrichr.py:0: error: Return value expected  [return-value]
gget/gget_enrichr.py:0: error: Return value expected  [return-value]
gget/gget_enrichr.py:0: error: Return value expected  [return-value]
gget/gget_enrichr.py:0: error: Return value expected  [return-value]
gget/gget_enrichr.py:0: error: Return value expected  [return-value]
gget/gget_diamond.py:0: error: Value of type variable "AnyStr" of "abspath" cannot be "str | list[str]"  [type-var]
gget/gget_diamond.py:0: error: Value of type variable "AnyStr" of "abspath" cannot be "str | list[str]"  [type-var]
gget/gget_diamond.py:0: error: Item "list[str]" of "str | list[str]" has no attribute "replace"  [union-attr]
gget/gget_diamond.py:0: error: Item "list[str]" of "str | list[str]" has no attribute "replace"  [union-attr]
gget/gget_diamond.py:0: error: Item "None" of "IO[bytes] | None" has no attribute "read"  [union-attr]
gget/gget_diamond.py:0: error: Item "None" of "IO[bytes] | None" has no attribute "read"  [union-attr]
gget/gget_diamond.py:0: error: Item "None" of "IO[bytes] | None" has no attribute "read"  [union-attr]
gget/gget_cosmic.py:0: error: Missing return statement  [return]
gget/gget_cosmic.py:0: error: Unsupported operand types for + ("Series[str]" and "str")  [operator]
gget/gget_cosmic.py:0: error: Unsupported operand types for + ("Series[bool]" and "Series[str]")  [operator]
gget/gget_cosmic.py:0: error: Argument 3 to "query_local_cosmic" has incompatible type "str | None"; expected "str"  [arg-type]
gget/gget_archs4.py:0: error: Missing return statement  [return]
gget/gget_archs4.py:0: error: Return value expected  [return-value]
gget/gget_archs4.py:0: error: Incompatible types in assignment (expression has type "Any | Series[Any]", variable has type "str")  [assignment]
gget/gget_archs4.py:0: error: Return value expected  [return-value]
gget/gget_archs4.py:0: error: Return value expected  [return-value]
gget/gget_archs4.py:0: error: Return value expected  [return-value]
gget/gget_elm.py:0: error: Incompatible types in assignment (expression has type "list[str]", variable has type "ndarray[tuple[int], dtype[Any]] | ExtensionArray")  [assignment]
gget/gget_elm.py:0: error: Argument "sequences" to "seq_workflow" has incompatible type "ndarray[tuple[int], dtype[Any]] | ExtensionArray"; expected "list[str]"  [arg-type]
gget/gget_alphafold.py:0: error: Argument 1 to "open" has incompatible type "str | list[str]"; expected "int | str | bytes | PathLike[str] | PathLike[bytes]"  [arg-type]
gget/gget_alphafold.py:0: error: Argument 1 to "open" has incompatible type "str | list[str]"; expected "int | str | bytes | PathLike[str] | PathLike[bytes]"  [arg-type]
gget/gget_alphafold.py:0: error: Incompatible types in assignment (expression has type "str | list[str]", variable has type "list[str]")  [assignment]
gget/gget_alphafold.py:0: error: List comprehension has incompatible type List[object]; expected List[bool]  [misc]
gget/gget_alphafold.py:0: error: Item "None" of "IO[bytes] | None" has no attribute "read"  [union-attr]
gget/gget_alphafold.py:0: error: Incompatible types in assignment (expression has type "TextIOWrapper[_WrappedBuffer]", variable has type "Future[str]")  [assignment]
gget/gget_alphafold.py:0: error: "Future[str]" has no attribute "write"  [attr-defined]
gget/gget_alphafold.py:0: error: Incompatible types in assignment (expression has type "TextIOWrapper[_WrappedBuffer]", variable has type "Future[str]")  [assignment]
gget/gget_alphafold.py:0: error: "Future[str]" has no attribute "write"  [attr-defined]
gget/gget_alphafold.py:0: error: Incompatible types in assignment (expression has type "TextIOWrapper[_WrappedBuffer]", variable has type "Future[str]")  [assignment]
gget/gget_alphafold.py:0: error: Argument 2 to "dump" has incompatible type "Future[str]"; expected "SupportsWrite[str]"  [arg-type]
gget/gget_virus.py:0: error: Library stubs not installed for "dateutil"  [import-untyped]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "float", target has type "bool | None")  [assignment]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "float", target has type "bool | None")  [assignment]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "float", target has type "bool | None")  [assignment]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "float", target has type "bool | None")  [assignment]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "float | Any", target has type "bool | None")  [assignment]
gget/gget_virus.py:0: error: Unsupported operand types for / ("bool" and "None")  [operator]
gget/gget_virus.py:0: error: Unsupported operand types for / ("None" and "bool")  [operator]
gget/gget_virus.py:0: error: Unsupported left operand type for / ("None")  [operator]
gget/gget_virus.py:0: error: Incompatible return value type (got "list[Never]", expected "tuple[list[Any], dict[str, Any] | None]")  [return-value]
gget/gget_virus.py:0: error: Value of type "object" is not indexable  [index]
gget/gget_virus.py:0: error: Argument 1 to "makedirs" has incompatible type "str | None"; expected "str | bytes | PathLike[str] | PathLike[bytes]"  [arg-type]
gget/gget_virus.py:0: error: Argument 1 to "join" has incompatible type "str | None"; expected "str"  [arg-type]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "IO[Any]", variable has type "TextIOWrapper[_WrappedBuffer] | None")  [assignment]
gget/gget_virus.py:0: error: Argument 1 to "open" has incompatible type "str | None"; expected "int | str | bytes | PathLike[str] | PathLike[bytes]"  [arg-type]
gget/gget_virus.py:0: error: Argument 1 to "join" has incompatible type "str | None"; expected "str"  [arg-type]
gget/gget_virus.py:0: error: Argument 1 to "_parse_accession_input" has incompatible type "str | None"; expected "str"  [arg-type]
gget/gget_virus.py:0: error: Argument 1 to "_parse_accession_input" has incompatible type "str | None"; expected "str"  [arg-type]
gget/gget_virus.py:0: error: Item "None" of "dict[str, Any] | None" has no attribute "get"  [union-attr]
gget/gget_virus.py:0: error: Value of type "dict[str, Any] | None" is not indexable  [index]
gget/gget_virus.py:0: error: Argument 4 to "_track_failed_operation" has incompatible type "dict[str, Any] | None"; expected "dict[str, Any]"  [arg-type]
gget/gget_virus.py:0: error: Value of type "dict[str, Any] | None" is not indexable  [index]
gget/gget_virus.py:0: error: Argument 4 to "_track_failed_operation" has incompatible type "dict[str, Any] | None"; expected "dict[str, Any]"  [arg-type]
gget/gget_virus.py:0: error: Argument 4 to "_track_failed_operation" has incompatible type "dict[str, Any] | None"; expected "dict[str, Any]"  [arg-type]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "bool", target has type "str")  [assignment]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "bool", target has type "str")  [assignment]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "bool", target has type "str")  [assignment]
gget/gget_virus.py:0: error: Argument 1 to "_parse_date" has incompatible type "str | None"; expected "str"  [arg-type]
gget/gget_virus.py:0: error: Item "None" of "str | None" has no attribute "lower"  [union-attr]
gget/gget_virus.py:0: error: Item "None" of "str | None" has no attribute "lower"  [union-attr]
gget/gget_virus.py:0: error: Item "None" of "str | None" has no attribute "lower"  [union-attr]
gget/gget_virus.py:0: error: Value of type variable "SupportsRichComparisonT" of "min" cannot be "Any | None"  [type-var]
gget/gget_virus.py:0: error: Value of type variable "SupportsRichComparisonT" of "max" cannot be "Any | None"  [type-var]
gget/gget_virus.py:0: error: Argument 1 to "sum" has incompatible type "list[Any | None]"; expected "Iterable[bool]"  [arg-type]
gget/gget_virus.py:0: error: Argument "params" to "get" has incompatible type "dict[str, object]"; expected "SupportsItems[str | bytes | int | float, str | bytes | int | float | Iterable[str | bytes | int | float] | None] | tuple[str | bytes | int | float, str | bytes | int | float | Iterable[str | bytes | int | float] | None] | Iterable[tuple[str | bytes | int | float, str | bytes | int | float | Iterable[str | bytes | int | float] | None]] | str | bytes | None"  [arg-type]
gget/gget_virus.py:0: error: Argument 1 to "int" has incompatible type "str | None"; expected "str | Buffer | SupportsInt | SupportsIndex | SupportsTrunc"  [arg-type]
gget/gget_virus.py:0: error: Item "None" of "Element | None" has no attribute "text"  [union-attr]
gget/gget_virus.py:0: error: Value of type "str | None" is not indexable  [index]
gget/gget_virus.py:0: error: Argument 1 to "len" has incompatible type "str | None"; expected "Sized"  [arg-type]
gget/gget_virus.py:0: error: Unexpected keyword argument "method_whitelist" for "Retry"  [call-arg]
gget/gget_virus.py:0: error: Argument "params" to "get" of "Session" has incompatible type "dict[str, object]"; expected "SupportsItems[str | bytes | int | float, str | bytes | int | float | Iterable[str | bytes | int | float] | None] | tuple[str | bytes | int | float, str | bytes | int | float | Iterable[str | bytes | int | float] | None] | Iterable[tuple[str | bytes | int | float, str | bytes | int | float | Iterable[str | bytes | int | float] | None]] | str | bytes | None"  [arg-type]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "str | None", variable has type "str")  [assignment]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "str | None", variable has type "str")  [assignment]
gget/gget_virus.py:0: error: Incompatible return value type (got "tuple[dict[str, Any], str | None]", expected "dict[str, Any]")  [return-value]
gget/gget_virus.py:0: error: Unexpected keyword argument "method_whitelist" for "Retry"  [call-arg]
gget/gget_virus.py:0: error: Argument 1 to "int" has incompatible type "str | None"; expected "str | Buffer | SupportsInt | SupportsIndex | SupportsTrunc"  [arg-type]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "bool", target has type "str | None")  [assignment]
gget/gget_virus.py:0: error: "dict[str | None, str | None]" has no attribute "append"  [attr-defined]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "list[dict[str | None, str | None]]", target has type "dict[str | None, str | None]")  [assignment]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "str | None", variable has type "str")  [assignment]
gget/gget_virus.py:0: error: Incompatible return value type (got "dict[str | None, dict[str, Any]]", expected "dict[str, Any]")  [return-value]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "Literal[True]", target has type "str")  [assignment]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "Literal[True]", target has type "str")  [assignment]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "Literal[True]", target has type "str")  [assignment]
gget/gget_virus.py:0: error: Argument 1 to "_parse_date" has incompatible type "str | None"; expected "str"  [arg-type]
gget/gget_virus.py:0: error: Item "None" of "str | None" has no attribute "lower"  [union-attr]
gget/gget_virus.py:0: error: Item "None" of "str | None" has no attribute "lower"  [union-attr]
gget/gget_virus.py:0: error: Item "None" of "str | None" has no attribute "lower"  [union-attr]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "datetime | None", variable has type "str | None")  [assignment]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "datetime | None", variable has type "str | None")  [assignment]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "datetime | None", variable has type "str | None")  [assignment]
gget/gget_virus.py:0: error: Unsupported operand types for < ("datetime" and "str")  [operator]
gget/gget_virus.py:0: error: Unsupported operand types for > ("datetime" and "str")  [operator]
gget/gget_virus.py:0: error: Unsupported operand types for > ("datetime" and "str")  [operator]
gget/gget_virus.py:0: error: Incompatible return value type (got "list[Never]", expected "tuple[list[str], dict[str, int]]")  [return-value]
gget/gget_virus.py:0: error: Argument 1 to "download_sars_cov2_optimized" has incompatible type "**dict[str, bool | str | None]"; expected "str | None"  [arg-type]
gget/gget_virus.py:0: error: Argument 1 to "download_sars_cov2_optimized" has incompatible type "**dict[str, bool | str | None]"; expected "bool | None"  [arg-type]
gget/gget_virus.py:0: error: Argument 1 to "download_sars_cov2_optimized" has incompatible type "**dict[str, bool | str | None]"; expected "bool"  [arg-type]
gget/gget_virus.py:0: error: Argument 1 to "download_alphainfluenza_optimized" has incompatible type "**dict[str, bool | str | None]"; expected "str | None"  [arg-type]
gget/gget_virus.py:0: error: Argument 1 to "download_alphainfluenza_optimized" has incompatible type "**dict[str, bool | str | None]"; expected "bool | None"  [arg-type]
gget/gget_virus.py:0: error: Argument 1 to "download_alphainfluenza_optimized" has incompatible type "**dict[str, bool | str | None]"; expected "bool"  [arg-type]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "str", variable has type "dict[str, Any]")  [assignment]
gget/gget_virus.py:0: error: Name "genbank_data_prefetch" already defined on line 0  [no-redef]
gget/gget_virus.py:0: error: Argument "genbank_metadata" to "filter_genbank_metadata" has incompatible type "str"; expected "dict[str, Any]"  [arg-type]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "dict[str, str]", variable has type "str | None")  [assignment]
gget/gget_virus.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/gget_virus.py:0: error: Incompatible types in assignment (expression has type "dict[Never, Never]", variable has type "str | None")  [assignment]
gget/gget_virus.py:0: error: Argument 4 to "filter_sequences" has incompatible type "**dict[str, int | None]"; expected "bool"  [arg-type]
gget/gget_virus.py:0: error: Argument "genbank_metadata" to "save_genbank_metadata_to_csv" has incompatible type "str"; expected "dict[str, Any]"  [arg-type]
gget/gget_virus.py:0: error: Argument "genbank_metadata" to "save_genbank_metadata_to_csv" has incompatible type "str"; expected "dict[str, Any]"  [arg-type]
gget/gget_virus.py:0: error: Argument "genbank_metadata" to "filter_genbank_metadata" has incompatible type "str"; expected "dict[str, Any]"  [arg-type]
gget/gget_virus.py:0: error: Invalid index type "str" for "str"; expected type "SupportsIndex | slice"  [index]
gget/main.py:0: error: Argument "type" to "add_argument" of "_ActionsContainer" has incompatible type "type[dict[Any, Any]]"; expected "Callable[[str], Any] | FileType | str"  [arg-type]
gget/main.py:0: error: Argument 1 to "write" of "IO" has incompatible type "str | None"; expected "str"  [arg-type]
gget/main.py:0: error: Incompatible types in assignment (expression has type "DataFrame | None", variable has type "DataFrame")  [assignment]
