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-15,7 +15,7 @@ license = "MIT" [tool.poetry.dependencies] python = ">=3.9, <3.12.3, !=3.11.9" bokeh = ">=2.4.2" -dask = {version = ">=2021.12.0, <2023.12.1"} +dask = ">=2021.12.0, <2023.12.1" fastdtw = ">=0.3.4" h5py = ">=3.6.0" ipympl = ">=0.9.1" @@ -31,6 +31,7 @@ pynxtools-mpes = ">=0.0.3" pynxtools = ">=0.3.1" pyyaml = ">=6.0.0" scipy = ">=1.8.0" +setuptools = ">70" symmetrize = ">=0.5.5" threadpoolctl = ">=3.1.0" tifffile = ">=2022.2.9" diff --git a/sed/calibrator/momentum.py b/sed/calibrator/momentum.py index 0623ca26..7c009136 100644 --- a/sed/calibrator/momentum.py +++ b/sed/calibrator/momentum.py @@ -609,7 +609,7 @@ def spline_warp_estimate( Order of interpolation (see ``scipy.ndimage.map_coordinates()``). Defaults to 1. ascale: (float | list | tuple | np.ndarray, optional): Scale parameter determining a - realtive scale for each symmetry feature. If provided as single float, rotsym has + relative scale for each symmetry feature. If provided as single float, rotsym has to be 4. This parameter describes the relative scaling between the two orthogonal symmetry directions (for an orthorhombic system). This requires the correction points to be located along the principal axes (X/Y points of the Brillouin zone). @@ -1975,14 +1975,12 @@ def dictmerge( Returns: dict: Merged dictionary. """ - if isinstance( - other_entries, - (list, tuple), - ): # Merge main_dict with a list or tuple of dictionaries + # Merge main_dict with a list or tuple of dictionaries + if isinstance(other_entries, (list, tuple)): for oth in other_entries: main_dict = {**main_dict, **oth} - - elif isinstance(other_entries, dict): # Merge D with a single dictionary + # Merge D with a single dictionary + elif isinstance(other_entries, dict): main_dict = {**main_dict, **other_entries} return main_dict @@ -2147,7 +2145,7 @@ def load_dfield(file: str) -> tuple[np.ndarray, np.ndarray]: file (str): Path to file containing the inverse dfield Returns: - np.ndarray: the loaded inverse deformation field + tuple[np.ndarray, np.ndarray]: the loaded inverse row and column deformation fields """ rdeform_field: np.ndarray = None cdeform_field: np.ndarray = None diff --git a/sed/core/processor.py b/sed/core/processor.py index f1632f74..f02ac65c 100644 --- a/sed/core/processor.py +++ b/sed/core/processor.py @@ -1491,16 +1491,16 @@ def add_energy_offset( Args: constant (float, optional): The constant to shift the energy axis by. - columns (str | Sequence[str]): Name of the column(s) to apply the shift from. - weights (float | Sequence[float]): weights to apply to the columns. + columns (str | Sequence[str], optional): Name of the column(s) to apply the shift from. + weights (float | Sequence[float], optional): weights to apply to the columns. Can also be used to flip the sign (e.g. -1). Defaults to 1. - reductions (str | Sequence[str]): The reduction to apply to the column. Should be an - available method of dask.dataframe.Series. For example "mean". In this case the - function is applied to the column to generate a single value for the whole dataset. - If None, the shift is applied per-dataframe-row. Defaults to None. Currently only - "mean" is supported. - preserve_mean (bool | Sequence[bool]): Whether to subtract the mean of the column - before applying the shift. Defaults to False. + reductions (str | Sequence[str], optional): The reduction to apply to the column. + Should be an available method of dask.dataframe.Series. For example "mean". In this + case the function is applied to the column to generate a single value for the whole + dataset. If None, the shift is applied per-dataframe-row. Defaults to None. + Currently only "mean" is supported. + preserve_mean (bool | Sequence[bool], optional): Whether to subtract the mean of the + column before applying the shift. Defaults to False. preview (bool, optional): Option to preview the first elements of the data frame. Defaults to False. verbose (bool, optional): Option to print out diagnostic information. @@ -1826,16 +1826,16 @@ def add_delay_offset( Args: constant (float, optional): The constant to shift the delay axis by. flip_delay_axis (bool, optional): Option to reverse the direction of the delay axis. - columns (str | Sequence[str]): Name of the column(s) to apply the shift from. - weights (float | Sequence[float]): weights to apply to the columns. + columns (str | Sequence[str], optional): Name of the column(s) to apply the shift from. + weights (float | Sequence[float], optional): weights to apply to the columns. Can also be used to flip the sign (e.g. -1). Defaults to 1. - reductions (str | Sequence[str]): The reduction to apply to the column. Should be an - available method of dask.dataframe.Series. For example "mean". In this case the - function is applied to the column to generate a single value for the whole dataset. - If None, the shift is applied per-dataframe-row. Defaults to None. Currently only - "mean" is supported. - preserve_mean (bool | Sequence[bool]): Whether to subtract the mean of the column - before applying the shift. Defaults to False. + reductions (str | Sequence[str], optional): The reduction to apply to the column. + Should be an available method of dask.dataframe.Series. For example "mean". In this + case the function is applied to the column to generate a single value for the whole + dataset. If None, the shift is applied per-dataframe-row. Defaults to None. + Currently only "mean" is supported. + preserve_mean (bool | Sequence[bool], optional): Whether to subtract the mean of the + column before applying the shift. Defaults to False. preview (bool, optional): Option to preview the first elements of the data frame. Defaults to False. verbose (bool, optional): Option to print out diagnostic information. diff --git a/sed/loader/sxp/loader.py b/sed/loader/sxp/loader.py index b8a7ad29..b165257f 100644 --- a/sed/loader/sxp/loader.py +++ b/sed/loader/sxp/loader.py @@ -934,8 +934,8 @@ def read_dataframe( collect_metadata (bool, optional): Whether to collect metadata. Defaults to False. Returns: - tuple[dd.DataFrame, dd.DataFrame, dict]: A tuple containing the concatenated DataFrame - and metadata. + tuple[dd.DataFrame, dd.DataFrame, dict]: A tuple containing the concatenated DataFrame, + timed DataFrame, and metadata. Raises: ValueError: If neither 'runs' nor 'files'/'data_raw_dir' is provided.