From 16dc032ef73eae58a33b7ed9a35bee000a1727dc Mon Sep 17 00:00:00 2001
From: romainsacchi <romain@Romains-iMac.psi.ch>
Date: Mon, 5 Aug 2024 17:04:35 +0200
Subject: [PATCH] Preserve uncertainty info when regionalizing datasets.
 Distinguish between preserving ecoinvent and imports uncertainty.

---
 .../lci-battery-capacity.xlsx                 | Bin 33141 -> 33136 bytes
 premise/energy.py                             |   2 +-
 premise/export.py                             |   5 +-
 premise/inventory_imports.py                  |   2 +-
 premise/new_database.py                       |  21 ++---
 premise/transformation.py                     |  72 +++++++++++++++++-
 premise/utils.py                              |   2 +-
 premise/validation.py                         |  25 +++---
 8 files changed, 92 insertions(+), 37 deletions(-)

diff --git a/premise/data/additional_inventories/lci-battery-capacity.xlsx b/premise/data/additional_inventories/lci-battery-capacity.xlsx
index a71e025b512235962110b6ef3187377ea2a52207..bee3e5be07388bc74b45c3fbf2761b3b4cec88ec 100644
GIT binary patch
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diff --git a/premise/energy.py b/premise/energy.py
index bd52943f..976e2892 100644
--- a/premise/energy.py
+++ b/premise/energy.py
@@ -62,7 +62,7 @@ def import_heating_inventories(
             version_out=self.version,
             path=LCI_HEAT,
             system_model=self.system_model,
-            keep_uncertainty_data=False,
+            keep_uncertainty_data=True,
         )
         datasets = inventory.merge_inventory()
         self.database.extend(datasets)
diff --git a/premise/export.py b/premise/export.py
index 3c776b66..756caa99 100644
--- a/premise/export.py
+++ b/premise/export.py
@@ -961,7 +961,7 @@ def check_geographical_linking(scenario, original_database):
 
 
 def prepare_db_for_export(
-    scenario, name, original_database, keep_uncertainty_data=False, biosphere_name=None
+    scenario, name, original_database, biosphere_name=None
 ):
     """
     Prepare a database for export.
@@ -979,7 +979,6 @@ def prepare_db_for_export(
         original_database=original_database,
         database=scenario["database"],
         db_name=name,
-        keep_uncertainty_data=keep_uncertainty_data,
         biosphere_name=biosphere_name,
     )
     validator.run_all_checks()
@@ -991,7 +990,6 @@ def _prepare_database(
     scenario,
     db_name,
     original_database,
-    keep_uncertainty_data,
     biosphere_name,
 ):
 
@@ -999,7 +997,6 @@ def _prepare_database(
         scenario,
         name=db_name,
         original_database=original_database,
-        keep_uncertainty_data=keep_uncertainty_data,
         biosphere_name=biosphere_name,
     )
 
diff --git a/premise/inventory_imports.py b/premise/inventory_imports.py
index 6bc2bb73..5258c81a 100644
--- a/premise/inventory_imports.py
+++ b/premise/inventory_imports.py
@@ -876,7 +876,7 @@ def prepare_inventory(self) -> None:
         # Remove uncertainty data
         if not self.keep_uncertainty_data:
             print("Remove uncertainty data.")
-            self.database = remove_uncertainty(self.database)
+            self.import_db.data = remove_uncertainty(self.import_db.data)
         else:
             check_uncertainty_data(self.import_db.data, filename=Path(self.path).stem)
 
diff --git a/premise/new_database.py b/premise/new_database.py
index 480a7090..eef23d69 100644
--- a/premise/new_database.py
+++ b/premise/new_database.py
@@ -514,7 +514,8 @@ def __init__(
         use_cached_database: bool = True,
         external_scenarios: list = None,
         quiet=False,
-        keep_uncertainty_data=False,
+        keep_imports_uncertainty=False,
+        keep_source_db_uncertainty=False,
         gains_scenario="CLE",
         use_absolute_efficiency=False,
         biosphere_name: str = "biosphere3",
@@ -525,7 +526,8 @@ def __init__(
         self.system_model = check_system_model(system_model)
         self.system_model_args = system_args
         self.use_absolute_efficiency = use_absolute_efficiency
-        self.keep_uncertainty_data = keep_uncertainty_data
+        self.keep_imports_uncertainty = keep_imports_uncertainty
+        self.keep_source_db_uncertainty = keep_source_db_uncertainty
         self.biosphere_name = check_presence_biosphere_database(biosphere_name)
 
         # if version is anything other than 3.8 or 3.9
@@ -630,7 +632,7 @@ def __find_cached_db(self, db_name: str) -> List[dict]:
             db_name = f"ecospold_{self.system_model}_{self.version}"
 
         uncertainty_data = (
-            "w_uncertainty" if self.keep_uncertainty_data is True else "wo_uncertainty"
+            "w_uncertainty" if self.keep_source_db_uncertainty is True else "wo_uncertainty"
         )
 
         file_name = (
@@ -663,7 +665,7 @@ def __find_cached_inventories(self, db_name: str) -> Union[None, List[dict]]:
             db_name = f"ecospold_{self.system_model}_{self.version}"
 
         uncertainty_data = (
-            "w_uncertainty" if self.keep_uncertainty_data is True else "wo_uncertainty"
+            "w_uncertainty" if self.keep_imports_uncertainty is True else "wo_uncertainty"
         )
 
         file_name = (
@@ -696,7 +698,7 @@ def __clean_database(self) -> List[dict]:
         """
         return DatabaseCleaner(
             self.source, self.source_type, self.source_file_path, self.version
-        ).prepare_datasets(self.keep_uncertainty_data)
+        ).prepare_datasets(self.keep_source_db_uncertainty)
 
     def __import_inventories(self) -> List[dict]:
         """
@@ -808,7 +810,7 @@ def __import_inventories(self) -> List[dict]:
                 version_out=self.version,
                 path=filepath[0],
                 system_model=self.system_model,
-                keep_uncertainty_data=self.keep_uncertainty_data,
+                keep_uncertainty_data=self.keep_imports_uncertainty,
             )
             datasets = inventory.merge_inventory()
             data.extend(datasets)
@@ -1009,7 +1011,6 @@ def write_superstructure_db_to_brightway(
                 scenario=scenario,
                 db_name=name,
                 original_database=self.database,
-                keep_uncertainty_data=self.keep_uncertainty_data,
                 biosphere_name=self.biosphere_name,
             )
 
@@ -1033,7 +1034,6 @@ def write_superstructure_db_to_brightway(
             scenario=tmp_scenario,
             name="database",
             original_database=self.database,
-            keep_uncertainty_data=self.keep_uncertainty_data,
             biosphere_name=self.biosphere_name,
         )
 
@@ -1101,7 +1101,6 @@ def write_db_to_brightway(self, name: [str, List[str]] = None):
                 scenario=scenario,
                 db_name=name[s],
                 original_database=self.database,
-                keep_uncertainty_data=self.keep_uncertainty_data,
                 biosphere_name=self.biosphere_name,
             )
             write_brightway_database(
@@ -1176,7 +1175,6 @@ def scenario_name(scenario):
                 scenario=scenario,
                 db_name="database",
                 original_database=self.database,
-                keep_uncertainty_data=self.keep_uncertainty_data,
                 biosphere_name=self.biosphere_name,
             )
             Export(scenario, filepath[s], self.version).export_db_to_matrices()
@@ -1217,7 +1215,6 @@ def write_db_to_simapro(self, filepath: str = None):
                 scenario=scenario,
                 db_name="database",
                 original_database=self.database,
-                keep_uncertainty_data=self.keep_uncertainty_data,
                 biosphere_name=self.biosphere_name,
             )
             export = Export(scenario, filepath, self.version)
@@ -1264,7 +1261,6 @@ def write_db_to_olca(self, filepath: str = None):
                 scenario=scenario,
                 db_name="database",
                 original_database=self.database,
-                keep_uncertainty_data=self.keep_uncertainty_data,
                 biosphere_name=self.biosphere_name,
             )
             Export(scenario, filepath, self.version).export_db_to_simapro(
@@ -1305,7 +1301,6 @@ def write_datapackage(
                 scenario=scenario,
                 db_name=name,
                 original_database=self.database,
-                keep_uncertainty_data=self.keep_uncertainty_data,
                 biosphere_name=self.biosphere_name,
             )
 
diff --git a/premise/transformation.py b/premise/transformation.py
index 716e42ce..42cde18a 100644
--- a/premise/transformation.py
+++ b/premise/transformation.py
@@ -1057,6 +1057,19 @@ def relink_datasets(self, excludes_datasets=None, alt_names=None):
             if len(excs_to_relink) == 0:
                 continue
 
+            old_uncertainty = {}
+
+            for exc in excs_to_relink:
+                if exc["type"] == "technosphere":
+                    if exc.get("uncertainty type", 0) != 0:
+                        old_uncertainty[(exc["name"], exc.get("product"), exc["unit"])] = {
+                            "uncertainty type": exc.get("uncertainty type", 0),
+                            "loc": exc.get("loc", 0) / exc["amount"] if exc.get("loc") else None,
+                            "scale": exc.get("scale", 0) / exc["amount"] if exc.get("scale") else None,
+                            "minimum": exc.get("minimum", 0) / exc["amount"] if exc.get("minimum") else None,
+                            "maximum": exc.get("maximum", 0) / exc["amount"] if exc.get("maximum") else None,
+                        }
+
             # make a dictionary with the names and amounts
             # of the technosphere exchanges to relink
             # to compare with the new exchanges
@@ -1085,6 +1098,17 @@ def relink_datasets(self, excludes_datasets=None, alt_names=None):
                 act, unique_excs_to_relink, alt_names
             )
 
+            # apply uncertainties, if any
+            if old_uncertainty:
+                for exc in new_exchanges:
+                    key = (exc["name"], exc["product"], exc["unit"])
+                    if key in old_uncertainty:
+                        exc["uncertainty type"] = old_uncertainty[key]["uncertainty type"]
+                        for k, v in old_uncertainty[key].items():
+                            if k != "uncertainty type":
+                                if v is not None:
+                                    exc[k] = v * exc["amount"]
+
             # Update act["exchanges"] by removing the exchanges to relink
             act["exchanges"] = [e for e in act["exchanges"] if e not in excs_to_relink]
             # Update act["exchanges"] by adding new exchanges
@@ -1574,6 +1598,12 @@ def process_cached_exchange(
                     "location": i[2],
                     "type": "technosphere",
                     "amount": exchange["amount"] * i[-1],
+                    "uncertainty type": exchange.get("uncertainty type", 0),
+                    "loc": exchange.get("loc", 0) * i[-1],
+                    "scale": exchange.get("scale", 0) * i[-1],
+                    "negative": exchange.get("negative", False),
+                    "minimum": exchange.get("minimum", 0) * i[-1],
+                    "maximum": exchange.get("maximum", 0) * i[-1],
                 }
                 for i in exchanges
             ]
@@ -1634,6 +1664,12 @@ def process_uncached_exchange(
                     "location": dataset["location"],
                     "type": "technosphere",
                     "amount": exchange["amount"],
+                    "uncertainty type": exchange.get("uncertainty type", 0),
+                    "loc": exchange.get("loc", None),
+                    "scale": exchange.get("scale", None),
+                    "negative": exchange.get("negative", False),
+                    "minimum": exchange.get("minimum", None),
+                    "maximum": exchange.get("maximum", None),
                 }
             ]
 
@@ -1679,6 +1715,12 @@ def new_exchange(self, exchange, location, amount_multiplier):
             "location": location,
             "type": "technosphere",
             "amount": exchange["amount"] * amount_multiplier,
+            "uncertainty type": exchange.get("uncertainty type", 0),
+            "loc": exchange.get("loc", None),
+            "scale": exchange.get("scale", None),
+            "negative": exchange.get("negative", False),
+            "minimum": exchange.get("minimum", None),
+            "maximum": exchange.get("maximum", None),
         }
 
     def handle_multiple_possible_datasets(
@@ -1923,6 +1965,19 @@ def relink_technosphere_exchanges(
             if exc["type"] == "technosphere":
                 exchanges_before[exc["product"]] += exc["amount"]
 
+        old_uncertainty = {}
+
+        for exc in dataset["exchanges"]:
+            if exc["type"] == "technosphere":
+                if exc.get("uncertainty type", 0) != 0:
+                    old_uncertainty[(exc["name"], exc.get("product"), exc["unit"])] = {
+                        "uncertainty type": exc.get("uncertainty type", 0),
+                        "loc": exc.get("loc", 0) / exc["amount"] if exc.get("loc") else None,
+                        "scale": exc.get("scale", 0) / exc["amount"] if exc.get("scale") else None,
+                        "minimum": exc.get("minimum", 0) / exc["amount"] if exc.get("minimum") else None,
+                        "maximum": exc.get("maximum", 0) / exc["amount"] if exc.get("maximum") else None,
+                    }
+
         new_exchanges = self.find_candidates(
             dataset,
             exclusive=exclusive,
@@ -1943,14 +1998,25 @@ def relink_technosphere_exchanges(
                 "type": "technosphere",
                 "amount": sum(exc["amount"] for exc in exchanges),
             }
-            for (name, prod, location, unit), exchanges in groupby(
+            for (name, prod, location, unit, ), exchanges in groupby(
                 sorted(
-                    new_exchanges, key=itemgetter("name", "product", "location", "unit")
+                    new_exchanges, key=itemgetter("name", "product", "location", "unit",)
                 ),
-                key=itemgetter("name", "product", "location", "unit"),
+                key=itemgetter("name", "product", "location", "unit",),
             )
         ]
 
+        # apply uncertainties, if any
+        if old_uncertainty:
+            for exc in new_exchanges:
+                key = (exc["name"], exc["product"], exc["unit"])
+                if key in old_uncertainty:
+                    exc["uncertainty type"] = old_uncertainty[key]["uncertainty type"]
+                    for k, v in old_uncertainty[key].items():
+                        if k != "uncertainty type":
+                            if v is not None:
+                                exc[k] = v * exc["amount"]
+
         dataset["exchanges"] = [
             exc for exc in dataset["exchanges"] if exc["type"] != "technosphere"
         ] + new_exchanges
diff --git a/premise/utils.py b/premise/utils.py
index bd3954d9..9a67ac3e 100644
--- a/premise/utils.py
+++ b/premise/utils.py
@@ -308,7 +308,7 @@ def hide_messages():
     """
 
     print("Keep uncertainty data?")
-    print("NewDatabase(..., keep_uncertainty_data=True)")
+    print("NewDatabase(..., keep_source_db_uncertainty=True), keep_imports_uncertainty=True)")
     print("")
     print("Hide these messages?")
     print("NewDatabase(..., quiet=True)")
diff --git a/premise/validation.py b/premise/validation.py
index fea1c5d6..0241ff3d 100644
--- a/premise/validation.py
+++ b/premise/validation.py
@@ -151,7 +151,6 @@ def __init__(
         database,
         original_database=None,
         db_name=None,
-        keep_uncertainty_data=False,
         biosphere_name=None,
     ):
         self.original_database = original_database
@@ -164,7 +163,6 @@ def __init__(
         self.geo = Geomap(model)
         self.minor_issues_log = []
         self.major_issues_log = []
-        self.keep_uncertainty_data = keep_uncertainty_data
         self.biosphere_name = biosphere_name
 
     def check_matrix_squareness(self):
@@ -202,18 +200,17 @@ def check_uncertainty(self):
             12: {"loc", "scale", "shape"},
         }
 
-        if self.keep_uncertainty_data is True:
-            for ds in self.database:
-                for exc in ds["exchanges"]:
-                    if int(exc.get("uncertainty type", 0)) not in [0, 1]:
-                        if not all(
-                            f in exc
-                            for f in MANDATORY_UNCERTAINTY_FIELDS[
-                                int(exc["uncertainty type"])
-                            ]
-                        ):
-                            message = f"Exchange {exc['name']} has incomplete uncertainty data."
-                            self.log_issue(ds, "incomplete uncertainty data", message)
+        for ds in self.database:
+            for exc in ds["exchanges"]:
+                if int(exc.get("uncertainty type", 0)) not in [0, 1]:
+                    if not all(
+                        f in exc
+                        for f in MANDATORY_UNCERTAINTY_FIELDS[
+                            int(exc["uncertainty type"])
+                        ]
+                    ):
+                        message = f"Exchange {exc['name']} has incomplete uncertainty data."
+                        self.log_issue(ds, "incomplete uncertainty data", message)
 
     def check_datasets_integrity(self):
         # Verify no unintended loss of datasets