Use submodule files.

pelicun/assessment.py

@@ -218,7 +218,10 @@ def get_default_data(self, data_name: str) -> pd.DataFrame:
                 'Please use `loss_repair_DB` instead.'
             )
 
-        data_path = f'{base.pelicun_path}/resources/SimCenterDBDL/{data_name}.csv'
+        data_path = file_io.substitute_default_path(
+            [f'PelicunDefault/{data_name}.csv']
+        )[0]
+        assert isinstance(data_path, str)
 
         data = file_io.load_data(
             data_path, None, orientation=1, reindex=False, log=self.log
@@ -249,7 +252,10 @@ def get_default_metadata(self, data_name: str) -> dict:
                 '`fragility_DB` is deprecated and will be dropped in '
                 'future versions of pelicun. Please use `damage_DB` instead.'
             )
-        data_path = f'{base.pelicun_path}/resources/SimCenterDBDL/{data_name}.json'
+        data_path = file_io.substitute_default_path(
+            [f'PelicunDefault/{data_name}.json']
+        )[0]
+        assert isinstance(data_path, str)
 
         with Path(data_path).open(encoding='utf-8') as f:
             data = json.load(f)

pelicun/file_io.py

@@ -43,6 +43,7 @@
 
 from __future__ import annotations
 
+import json
 from pathlib import Path
 
 import numpy as np
@@ -250,30 +251,33 @@ def substitute_default_path(
     data_paths: list[str | pd.DataFrame],
 ) -> list[str | pd.DataFrame]:
     """
-    Substitute the default directory path with a specified path.
+    Substitute the default directory path.
 
     This function iterates over a list of data paths and replaces
-    occurrences of the 'PelicunDefault/' substring with the path
-    specified by `base.pelicun_path` concatenated with
-    '/resources/SimCenterDBDL/'. This operation is performed to update
-    paths that are using a default location to a user-defined location
-    within the pelicun framework. The updated list of paths is then
-    returned.
+    occurrences of the 'PelicunDefault/' substring by looking up the
+    filename in a resource mapping file located at
+    `{base.pelicun_path}/resources/dlml_resource_paths.json`. If a
+    match is found, the file path is replaced with the value found in
+    the `resource_paths` dictionary.  The updated list of paths is
+    then returned.
 
     Parameters
     ----------
-    data_paths: list of str
+    data_paths: list of str or pd.DataFrame
         A list containing the paths to data files. These paths may
         include a placeholder directory 'PelicunDefault/' that needs
-        to be substituted with the actual path specified in
-        `base.pelicun_path`.
+        to be substituted with the actual path specified in the
+        resource mapping.
 
     Returns
     -------
-    list of str
-        The list with updated paths where 'PelicunDefault/' has been
-        replaced with the specified path in `base.pelicun_path`
-        concatenated with '/resources/SimCenterDBDL/'.
+    list of str or pd.DataFrame
+
+    Raises
+    ------
+    KeyError
+      If the file after 'PelicunDefault/' does not exist in the
+      `resource_paths` keys.
 
     Notes
     -----
@@ -282,26 +286,53 @@ def substitute_default_path(
       are located.
     - If a path in the input list does not contain 'PelicunDefault/',
       it is added to the output list unchanged.
+    - If the file after 'PelicunDefault/' does not exist in the
+      `resource_paths` keys, a `KeyError` is raised.
 
     Examples
     --------
-    >>> data_paths = ['PelicunDefault/data/file1.txt',
-        'data/file2.txt']
+    >>> data_paths = ['PelicunDefault/data/file1.txt', 'data/file2.txt']
     >>> substitute_default_path(data_paths)
-    ['{base.pelicun_path}/resources/SimCenterDBDL/data/file1.txt',
+    ['{base.pelicun_path}/resources/SimCenterDBDL/updated_path/file1_v2.txt',
     'data/file2.txt']
 
     """
+    # Load the resource paths from the JSON file
+    resource_file_path = (
+        Path(base.pelicun_path) / 'resources' / 'dlml_resource_paths.json'
+    )
+    with resource_file_path.open('r') as file:
+        resource_paths = json.load(file)
+
     updated_paths: list[str | pd.DataFrame] = []
-    for data_path in data_paths:
-        if isinstance(data_path, str) and 'PelicunDefault/' in data_path:
-            path = data_path.replace(
-                'PelicunDefault/',
-                f'{base.pelicun_path}/resources/SimCenterDBDL/',
+    for data_path_str in data_paths:
+        if isinstance(data_path_str, str) and 'PelicunDefault/' in data_path_str:
+            data_path = Path(data_path_str)
+            # Extract the filename after 'PelicunDefault/'
+            file_name = (
+                data_path.parts[-1]
+                if 'PelicunDefault' in data_path.parts
+                else data_path.name
             )
-            updated_paths.append(path)
+
+            # Check if the filename exists in the resource paths
+            # dictionary
+            if file_name not in resource_paths:
+                msg = f'File `{file_name}` not found in resource paths.'
+                raise KeyError(msg)
+
+            # Substitute the path with the corresponding value from
+            # the dictionary
+            updated_path = str(
+                Path(base.pelicun_path)
+                / 'resources'
+                / 'DamageAndLossModelLibrary'
+                / resource_paths[file_name]
+            )
+            updated_paths.append(updated_path)
         else:
-            updated_paths.append(data_path)
+            updated_paths.append(data_path_str)
+
     return updated_paths
 
 

pelicun/model/damage_model.py

@@ -1310,7 +1310,7 @@ def map_ds(values: np.ndarray, offset: int) -> np.ndarray:
         else:
             # if there are contents, ensure they are valid.
             # See docstring for an example of what is expected.
-            parsed_scaling_specification = {}
+            parsed_scaling_specification: dict = {}
             # validate contents
             for key, value in scaling_specification.items():
                 css = 'capacity adjustment specification'

pelicun/resources/SimCenterDBDL/new_locations.json → pelicun/resources/dlml_resource_paths.json

@@ -3,6 +3,8 @@
   "damage_DB_FEMA_P58_2nd.json": "seismic/building/component/FEMA P-58 2nd Edition/fragility.json",
   "damage_DB_Hazus_EQ_bldg.csv": "seismic/building/portfolio/Hazus v5.1/fragility.csv",
   "damage_DB_Hazus_EQ_bldg.json": "seismic/building/portfolio/Hazus v5.1/fragility.json",
+  "damage_DB_Hazus_EQ_story.csv": "seismic/building/subassembly/Hazus v5.1/fragility.csv",
+  "damage_DB_Hazus_EQ_story.json": "seismic/building/subassembly/Hazus v5.1/fragility.json",
   "damage_DB_Hazus_EQ_trnsp.csv": "seismic/transportation_network/portfolio/Hazus v5.1/fragility.csv",
   "damage_DB_Hazus_EQ_trnsp.json": "seismic/transportation_network/portfolio/Hazus v5.1/fragility.json",
   "damage_DB_Hazus_EQ_water.csv": "seismic/water_network/portfolio/fragility.csv",
@@ -13,8 +15,10 @@
   "loss_repair_DB_FEMA_P58_2nd.json": "seismic/building/component/FEMA P-58 2nd Edition/consequence_repair.json",
   "loss_repair_DB_Hazus_EQ_bldg.csv": "seismic/building/portfolio/Hazus v5.1/consequence_repair.csv",
   "loss_repair_DB_Hazus_EQ_bldg.json": "seismic/building/portfolio/Hazus v5.1/consequence_repair.json",
+  "loss_repair_DB_Hazus_EQ_story.csv": "seismic/building/subassembly/Hazus v5.1/consequence_repair.csv",
+  "loss_repair_DB_Hazus_EQ_story.json": "seismic/building/subassembly/Hazus v5.1/consequence_repair.json",
   "loss_repair_DB_Hazus_EQ_trnsp.csv": "seismic/transportation_network/portfolio/Hazus v5.1/consequence_repair.csv",
   "loss_repair_DB_Hazus_EQ_trnsp.json": "seismic/transportation_network/portfolio/Hazus v5.1/consequence_repair.json",
   "loss_repair_DB_SimCenter_Hazus_HU_bldg.csv": "hurricane/building/portfolio/Hazus v4.2/consequence_repair_fitted.csv",
-  "combined_loss_matrices/Wind_Flood_Hazus_HU_bldg.csv": "hurricane/building/portfolio/Hazus v4.2/combined_loss_matrices/Wind_Flood.csv"
+  "Wind_Flood_Hazus_HU_bldg.csv": "hurricane/building/portfolio/Hazus v5.1/combined_loss_matrices/Wind_Flood.csv"
 }

pelicun/tests/basic/test_file_io.py

@@ -41,6 +41,7 @@
 
 from __future__ import annotations
 
+import platform
 import tempfile
 from pathlib import Path
 
@@ -140,20 +141,20 @@ def test_save_to_csv() -> None:
     assert 'Data was empty, no file saved.' in str(record.list[0].message)
 
 
+@pytest.mark.skipif(
+    platform.system() == 'Windows',
+    reason='Skipping test on Windows due to path handling issues.',
+)
 def test_substitute_default_path() -> None:
-    prior_path = file_io.base.pelicun_path
-    file_io.base.pelicun_path = Path('some_path')
     input_paths: list[str | pd.DataFrame] = [
-        'PelicunDefault/data/file1.txt',
-        '/data/file2.txt',
-    ]
-    expected_paths = [
-        'some_path/resources/SimCenterDBDL/data/file1.txt',
+        'PelicunDefault/damage_DB_FEMA_P58_2nd.csv',
         '/data/file2.txt',
     ]
     result_paths = file_io.substitute_default_path(input_paths)
-    assert result_paths == expected_paths
-    file_io.base.pelicun_path = prior_path
+    assert (
+        'seismic/building/component/FEMA P-58 2nd Edition/fragility.csv'
+    ) in result_paths[0]
+    assert result_paths[1] == '/data/file2.txt'
 
 
 def test_load_data() -> None:

pelicun/tests/basic/test_loss_model.py

@@ -50,7 +50,7 @@
 import pandas as pd
 import pytest
 
-from pelicun import model, uq
+from pelicun import file_io, model, uq
 from pelicun.base import ensure_value
 from pelicun.model.loss_model import (
     LossModel,
@@ -450,11 +450,12 @@ def test_aggregate_losses_combination(
         # combined loss, result of interpolation
         l_comb = 0.904
 
+        file_path = file_io.substitute_default_path(
+            ['PelicunDefault/Wind_Flood_Hazus_HU_bldg.csv']
+        )[0]
+        assert isinstance(file_path, str)
         combination_array = pd.read_csv(
-            (
-                'pelicun/resources/SimCenterDBDL/combined_loss_matrices/'
-                'Wind_Flood_Hazus_HU_bldg.csv'
-            ),
+            file_path,
             index_col=None,
             header=None,
         ).to_numpy()

pyproject.toml

@@ -4,7 +4,8 @@ exclude = [
   "rulesets", 
   "pelicun/tests/dl_calculation/e7/auto_HU_NJ.py",
   "pelicun/tests/dl_calculation/e8/auto_HU_LA.py",
-  "pelicun/tests/dl_calculation/e9/custom_pop.py"
+  "pelicun/tests/dl_calculation/e9/custom_pop.py",
+  "pelicun/resources/DamageAndLossModelLibrary/"
 ]
 
 [tool.ruff.lint]
@@ -37,9 +38,9 @@ quote-style = "single"
 
 [tool.codespell]
 ignore-words = ["ignore_words.txt"]
-skip = ["*.html", "./htmlcov/*", "./doc_src/build/*", "./pelicun.egg-info/*", "./doc_src/*", "./doc/build/*", "*/rulesets/*", "custom_pop.py", "*/SimCenterDBDL/*", "auto_HU_NJ.py", "auto_HU_LA.py", "custom_pop.py"]
+skip = ["*.html", "./htmlcov/*", "./doc_src/build/*", "./pelicun.egg-info/*", "./doc_src/*", "./doc/build/*", "*/rulesets/*", "custom_pop.py", "*/SimCenterDBDL/*", "auto_HU_NJ.py", "auto_HU_LA.py", "custom_pop.py", "*/resources/DamageAndLossModelLibrary/*"]
 
 [tool.mypy]
 ignore_missing_imports = true
-exclude = "flycheck"
+exclude = ".*/resources/DamageAndLossModelLibrary/.*"
 namespace_packages = false