mrio-toolbox 1.1.2__py3-none-any.whl → 1.1.3__py3-none-any.whl

utils/loaders/_pandas_loader.py

@@ -1,128 +0,0 @@
-"""Routines for loading from Excel"""
-
-from mrio_toolbox.utils.loaders._np_loader import load_file
-from mrio_toolbox.utils.loaders._parameter_loader import Parameter_Loader
-from mrio_toolbox.utils import converters
-import os
-import logging
-
-log = logging.getLogger(__name__)
-
-class Pandas_Loader(Parameter_Loader):
-    """
-    Class for loading MRIO data through Pandas.
-
-    The `Pandas_Loader` class extends the `Parameter_Loader` class to provide 
-    functionality for loading MRIO data from `.xlsx` and `.csv` files. It uses 
-    the Pandas library to read the data and extract metadata, labels, and parts.
-
-    Instance variables
-    ------------------
-    groupings : dict
-        Groupings for the labels, defining higher-level aggregations.
-    labels : dict
-        Explicit dictionary of labels for the MRIO data.
-    dimensions : list of int
-        List of label names.
-    path : str
-        Path to the data file.
-    labels_path : str
-        Path to the labels file.
-    parts : dict
-        Parts to load, with specific settings.
-    loader_kwargs : dict
-        Parameters passed to the underlying Pandas loader (e.g., `read_excel`, `read_csv`).
-
-    Methods
-    -------
-    load_part(**kwargs):
-        Load a specific Part from explicit parameters.
-
-    """
-    
-    def __init__(
-            self,
-            **kwargs
-            ):
-        """
-        Initialize a Pandas_Loader object.
-
-        Parameters
-        ----------
-        loader_kwargs : dict, optional
-            Parameters passed to the underlying loader.
-               - .xlsx: pandas.read_excel
-               - .csv: pandas.read_csv
-        groupings : dict, optional
-            Aggregation on labels
-        labels : dict, optional
-            Explicit dictionary of labels.
-        dimensions : list of int, optional
-            List of label names.
-        path : str, optional
-            Path to the data
-            The following paths are recognized:
-            - path
-            - mrio_path
-            - file
-            - data_path
-            - table/year/version
-        labels_path : str, optional
-            Path to the labels files
-        parts : dict, optional
-            Parts to load, with specific settings
-        **kwargs : dict
-            Metadata for the MRIO data.
-            MRIO metadata are passed to associated parts.
-
-        """
-        super().__init__(**kwargs)
-
-    def load_part(
-            self,
-            **kwargs
-    ):
-        """
-        Load a Part from explicit parameters.
-
-        Parameters provided as arguments overload the corresponding instance attributes.
-
-        Returns
-        -------
-        dict
-            Data for creating the Part object
-
-        Raises
-        ------
-        FileNotFoundError
-            If no file nor name argument is provided
-        """
-        #Update loader parameters
-        self.update_attributes(**kwargs)
-
-        file = self.get_file(**kwargs)
-        
-        loader_kwargs = kwargs.pop("loader_kwargs",self.loader_kwargs)
-
-        name = kwargs.pop("name",os.path.splitext(os.path.basename(file))[0])
-
-        log.info(f"Load part {name} from {file}")
-        
-        if name in self.part_settings:
-            #Load preset settings
-            part_settings = self.part_settings[name]
-            kwargs.update(part_settings)
-
-        autodetect_labels = True
-        if any(key in loader_kwargs for key in ["index_col", "header"]):
-            #If labels are explicitly provided, do not autodetect
-            autodetect_labels = False
-
-        
-        return converters.pandas.make_part(load_file(file,
-                                     **loader_kwargs,
-                                     extension=self.extension,
-                                     pandas=True),
-                                     name=name,
-                                     label_detection=autodetect_labels,
-                                     **kwargs)

utils/loaders/_parameter_loader.py

@@ -1,386 +0,0 @@
-"""
-Routine for loading MRIO tables from explicit parameters
-"""
-
-import os
-from mrio_toolbox.utils.loaders._loader import Loader
-from mrio_toolbox.utils.loaders._np_loader import load_file
-import pathlib
-import logging
-from pathlib import Path
-
-log = logging.getLogger(__name__)
-
-class Parameter_Loader(Loader):
-    """
-    Class for loading MRIO data from explicit parameters.
-
-    The `Parameter_Loader` class extends the `Loader` class to provide 
-    functionality for loading MRIO data from explicit parameters, such as 
-    `.npy`, `.csv`, or `.txt` files. It supports metadata extraction, label 
-    formatting, and grouping management.
-
-    Instance variables
-    ------------------
-    metadata : dict
-        Metadata associated with the MRIO data.
-    labels : dict
-        Explicit dictionary of labels for the MRIO data.
-    groupings : dict
-        Groupings for the labels, defining higher-level aggregations.
-    path : str
-        Path to the data file or directory.
-    labels_path : str
-        Path to the labels file or directory.
-    part_settings : dict
-        Settings for loading specific parts of the MRIO data.
-    extension : str or None
-        File extension for the data files (e.g., `.npy`, `.csv`).
-
-    Methods
-    -------
-    available_parts(extension=None):
-        List the available parts in the current path.
-    extract_path(update=False, **kwargs):
-        Extract the path from the provided parameters.
-    format_labels(labels):
-        Process and format the label information.
-    load_mrio(**kwargs):
-        Load MRIO data from explicit parameters.
-    get_file(**kwargs):
-        Get the file to load based on the provided parameters.
-    load_part(**kwargs):
-        Load a specific Part from explicit parameters.
-    _get_labels(l):
-        Find the labels fitting an axis with a given shape.
-
-    Notes
-    -----
-    This class is designed for loading MRIO data in non-netCDF formats. 
-    It provides flexible handling of paths, labels, and groupings, making it 
-    suitable for a variety of file formats and data structures.
-    """
-    def __init__(
-            self,
-            **kwargs
-            ):
-        """
-        Initialize a Parameter_Loader object.
-
-        Parameters
-        ----------
-        loader_kwargs : dict, optional
-            Parameters passed to the underlying loader.
-               - `.npy`: numpy.load
-               - `.csv`, `.txt`: numpy.loadtxt
-        groupings : dict, optional
-            Groupings for the labels, defining higher-level aggregations.
-        labels : dict, optional
-            Explicit dictionary of labels for the MRIO data.
-        dimensions : list of int, optional
-            List of label names.
-        path : str, optional
-            Path to the data file or directory. Recognized paths include:
-            - `path`
-            - `mrio_path`
-            - `file`
-            - `data_path`
-            - `table/year/version`
-        labels_path : str, optional
-            Path to the labels file or directory.
-        parts : dict, optional
-            Settings for loading specific parts of the MRIO data.
-        extension : str, optional
-            File extension for the data files (e.g., `.npy`, `.csv`).
-        **kwargs : dict
-            Additional metadata for the MRIO data.
-
-        """
-        self.extract_basic_info(**kwargs)
-        self.extract_path(update=True,**kwargs)
-        self.labels = dict()
-
-        try:
-            log.debug("Try bulk labels loading.")
-            self.labels = load_file(
-                os.path.join(
-                   self.metadata["path"],"labels.yaml"
-                   )
-                    )
-        except FileNotFoundError:
-            log.debug("No labels found in the path.")
-            labels = kwargs.pop("labels",None)
-            if labels is None:
-                self.metadata["dimensions"] = kwargs.get("dimensions",None)
-                labels = self.metadata["dimensions"]
-            self.labels = dict()
-            self.format_labels(labels)
-
-        try:
-            self.groupings = load_file(
-                os.path.join(
-                    self.metadata["path"],"groupings.yaml"
-                    )
-                    )
-        except FileNotFoundError:
-            self.groupings = kwargs.pop("groupings",dict())
-
-        self.extension = kwargs.get("extension",None)
-        
-        self.part_settings = kwargs.get("parts",dict())
-        super().__init__()
-
-    def available_parts(self,extension=None):
-        """
-        List the available parts in the current path.
-
-        Parameters
-        ----------
-        extension : str, optional
-            Extension of the files to look for.
-            If not provided, all files are listed.
-
-        Returns
-        -------
-        list
-            List of available parts
-        """
-        if extension is None:
-            extension = self.extension
-            
-        if extension is None:
-            return os.listdir(self.path)
-        files = os.listdir(self.path)
-        parts = [
-            Path(file).stem for file in files if file.endswith(extension)
-            ]
-        return parts
-    
-    def extract_path(self,update=False,**kwargs):
-        """
-        Extract the path from the kwargs.
-
-        Valid formats are:
-        - path
-        - mrio_path
-        - file
-        - data_path
-        - table/year/version
-        In absence of explicit path, the current directory is used.
-
-        Parameters
-        ----------
-        update : bool, optional
-            Whether to update the path attribute.
-            If a path is already set, it is not overridden.
-        """
-        if "path" in kwargs:
-            self.path = kwargs.pop("path")
-        elif "mrio_path" in kwargs:
-            self.path = kwargs.pop("mrio_path")
-        elif "data_path" in kwargs and update:
-            self.path = kwargs.pop("data_path")
-        elif "file" in kwargs and update:
-            self.path = pathlib.Path(kwargs.pop("file")).parent
-        elif "path" in self.__dict__.keys() and not update:
-            log.debug("No path provided.")
-            self.path = "."
-
-        if "table" in kwargs and "year" in kwargs and "version" in kwargs:
-            self.path = os.path.join(
-                self.path,
-                kwargs.pop("table"),
-                str(kwargs.pop("year")),
-                kwargs.pop("version"))
-        
-        self.labels_path = kwargs.get("labels_path",
-                                      self.__dict__.get("labels_path",self.path)
-                                      )
-
-        #Store paths in metadata
-        self.metadata["path"] = self.path
-        self.metadata["labels_path"] = self.labels_path
-
-    def format_labels(self,labels):
-        """
-        Treat the label information
-
-        If labels are provided as dict, they are kept as is.
-        If labels are provided as string, they are loaded from the labels_path folder.
-        The labels are stored as a dict of lists.
-        """
-        if labels is None:
-            log.debug("No labels provided.")
-            return
-        if isinstance(labels,dict):
-            self.labels = labels
-        if isinstance(labels,str):
-            labels = [labels]
-            
-        for label in labels:
-            if isinstance(label,list):
-                for sublabel in label:
-                    self.format_labels(sublabel)
-            elif label not in self.labels.keys():
-                log.debug("Load labels: "+label)
-                self.labels[label] = load_file(
-                    os.path.join(self.labels_path,label),dtype=str
-                )
-                
-    def load_mrio(
-            self,
-            **kwargs
-    ):
-        """
-        Load MRIO data from explicit parameters.
-
-        If parameters are provided, they overload the corresponding instance attributes.
-        """
-        self.update_attributes(**kwargs)
-    
-    def get_file(self,**kwargs):
-        """
-        Get the file to load.
-
-        Parameters
-        ----------
-        file : path-like, optional
-            User-defined path to the file, by default None
-
-        Returns
-        -------
-        path-like
-            Path to the file to load from
-
-        Raises
-        ------
-        ValueError
-            If no file is provided nor currently loaded
-        """
-        self.check_instructions(**kwargs)
-        #Check if new instructions are provided
-        
-        instructions = self.metadata.get("instructions",None)
-
-        #Find file
-        if "file" in kwargs and kwargs.get("file")!=instructions:
-            #Ignore the file argument if it is the same as the one in the instructions
-            return kwargs.pop("file")
-        if "file_name" in kwargs:
-            return os.path.join(self.path,kwargs.pop("file_name"))
-        if "name" in kwargs:
-            return os.path.join(self.path,kwargs.pop("name"))
-        if self.file is None:
-            log.error("No file provided: please provide a full file or a file name.")
-            raise ValueError("No file provided: please provide a full file or a file name.")
-        return self.file
-        
-
-    def load_part(
-            self,
-            **kwargs
-    ):
-        """
-        Load a Part from explicit parameters.
-
-        Parameters provided as arguments overload the corresponding instance attributes.
-
-        Returns
-        -------
-        dict
-            Data for creating the Part object
-
-        Raises
-        ------
-        FileNotFoundError
-            If no file nor name argument is provided
-        """
-        #Initialize Part specific parameters
-        part_data = {
-            "metadata" : dict()
-        }
-
-        #Update loader parameters
-        self.update_attributes(**kwargs)
-
-        file = self.get_file(**kwargs)
-
-        
-        loader_kwargs = kwargs.pop("loader_kwargs",self.loader_kwargs)
-
-        name = kwargs.pop("name",os.path.splitext(os.path.basename(file))[0])
-
-        log.info(f"Load part {name} from {file}")
-        
-        if name in self.part_settings:
-            #Load preset settings
-            part_settings = self.part_settings[name]
-            kwargs.update(part_settings)
-        
-        part_data["data"] = load_file(file,
-                                      extension=self.extension,**loader_kwargs)
-
-        labels = []
-        dimensions = kwargs.get("dimensions",
-                                self.metadata.get("dimensions",
-                                part_data["data"].shape)
-        )
-        if dimensions is None:
-            dimensions = part_data["data"].shape
-        for dim in dimensions:
-            labels.append(self._get_labels(dim))
-
-        part_data["metadata"] = self.metadata
-        part_data["name"] = name
-        part_data["metadata"]["path"] = self.path
-        part_data["metadata"]["loader_kwargs"] = loader_kwargs
-        part_data["labels"] = labels
-        part_data["groupings"] = kwargs.get("groupings",self.groupings)       
-        return part_data
-    
-    def _get_labels(self,l):
-        """Find the labels fitting an axis with a given shape
-            
-        If no fitting label is found, data are labelled numerically
-
-        Parameters
-        ----------
-        l : int, list or str
-            Length of the data dimension or name of the dimensions.
-
-        Returns
-        -------
-        dict of str:list of str
-            Labels of the axis.
-
-        """
-        if isinstance(l,list):
-            output = dict()
-            try:
-                for label in l:
-                    output.update(self._get_labels(label))
-                return output
-            except IndexError:
-                return {"0":l}
-        if isinstance(l,str):
-            if l not in self.labels.keys():
-                self.format_labels(l)
-            return {l:self.labels[l]}
-        if not isinstance(l,int):
-            log.error(f"Invalid dimension type {type(l)}")
-            raise TypeError(f"Invalid dimension type {type(l)}")
-        if l==1:
-            return {0:"all"}
-        log.debug("Try to infer label from axis of length "+str(l))
-        for label in self.labels:
-            #Look whether a basic label fits the axis
-            if l == len(self.labels[label]):
-                log.debug(f"Label {label} fits axis of length {l}")
-                return {label:self.labels[label]}
-        for grouping in self.groupings:
-            #Look whether a grouped label fits the axis
-            if l == len(self.groupings[grouping]):
-                log.debug(f"Label {label} fits axis of length {l}")
-                return {grouping:list(self.groupings[grouping]).keys()}
-        log.warning("No label found for axis of length "+str(l))
-        return {"0":[i for i in range(l)]}

utils/savers/__init__.py

@@ -1,11 +0,0 @@
-"""
-This module provides utility functions for saving MRIO objects.
-"""
-from mrio_toolbox.utils.savers._to_folder import save_mrio_to_folder, save_part_to_folder
-from mrio_toolbox.utils.savers._to_nc import save_to_nc
-
-__all__ = [
-    "save_mrio_to_folder",
-    "save_part_to_folder",
-    "save_to_nc"
-]

utils/savers/_path_checker.py

@@ -1,37 +0,0 @@
-"""
-Routines for checking and extending file paths to avoid overwriting existing files.
-"""
-import os
-import re
-
-def check_path(path):
-    """
-    Extend the name path to avoid overwriting existing files.
-
-    Parameters
-    ----------
-    path : str
-        Path currently selected
-    """
-
-    i = 1
-    while os.path.isfile(path):
-        base_path, ext = os.path.splitext(path)
-        
-        # Remove existing _number suffix if present
-        base_path = re.sub(r'_\d+$', repl, base_path)
-
-        path = f"{base_path}_{i}{ext}"
-        i += 1
-        
-    return path
-
-def repl(match):
-    '''
-    Condition for replacing the _number suffix
-    
-    If the suffix as 2 or 4 digits, we keep it and add version number after
-    2 digits can be used to identify MRIO tables, 4 digits for years
-    '''
-    s = match.group()
-    return s if len(s) == 3 or len(s) == 5 else ""