upgini 1.2.167a4220.dev1__tar.gz → 1.2.167a4220.dev3__tar.gz

{upgini-1.2.167a4220.dev1 → upgini-1.2.167a4220.dev3}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: upgini
-Version: 1.2.167a4220.dev1
+Version: 1.2.167a4220.dev3
 Summary: Intelligent data search & enrichment for Machine Learning
 Project-URL: Bug Reports, https://github.com/upgini/upgini/issues
 Project-URL: Homepage, https://upgini.com/

{upgini-1.2.167a4220.dev1 → upgini-1.2.167a4220.dev3}/pyproject.toml

@@ -73,6 +73,9 @@ packages = [
     "src/upgini"
 ]
 
+[tool.hatch.build.targets.wheel.force-include]
+"src/upgini/report/template.html" = "upgini/report/template.html"
+
 [tool.hatch.build]
 include = [
   "/src/utils/Roboto-Regular.ttf",

upgini-1.2.167a4220.dev3/src/upgini/__about__.py

@@ -0,0 +1 @@
+__version__ = "1.2.167.a4220.dev3"

{upgini-1.2.167a4220.dev1 → upgini-1.2.167a4220.dev3}/src/upgini/features_enricher.py

@@ -68,7 +68,13 @@ from upgini.metadata import (
     RuntimeParameters,
     SearchKey,
 )
-from upgini.metrics import EstimatorWrapper, define_scorer, validate_scoring_argument
+from upgini.metrics import (
+    EstimatorWrapper,
+    define_scorer,
+    format_metrics_for_display,
+    put_cv_metric,
+    validate_scoring_argument,
+)
 from upgini.normalizer.normalize_utils import Normalizer
 from upgini.resource_bundle import ResourceBundle, bundle, get_custom_bundle
 from upgini.search_task import SearchTask
@@ -179,9 +185,6 @@ class FeaturesEnricher(TransformerMixin):
 
     shared_datasets: list of str, optional (default=None)
         list of private shared dataset ids for custom search
-
-    reports_path: str, optional (default=None)
-        Directory for the HTML search report. Defaults to a `reports` folder in the current working directory.
     """
 
     TARGET_NAME = "target"
@@ -259,7 +262,6 @@ class FeaturesEnricher(TransformerMixin):
         sample_config: SampleConfig | None = None,
         print_trace_id: bool = False,
         print_loaded_report: bool = True,
-        reports_path: str | None = None,
         **kwargs,
     ):
         self.bundle = get_custom_bundle(custom_bundle_config)
@@ -318,6 +320,7 @@ class FeaturesEnricher(TransformerMixin):
         self.relevant_data_sources: pd.DataFrame = self.EMPTY_DATA_SOURCES
         self._relevant_data_sources_wo_links: pd.DataFrame = self.EMPTY_DATA_SOURCES
         self.metrics: pd.DataFrame | None = None
+        self.metrics_raw: pd.DataFrame | None = None
         self.metrics_metric_name: str | None = None
         self.feature_names_ = []
         self.external_source_feature_names = []
@@ -328,9 +331,8 @@ class FeaturesEnricher(TransformerMixin):
         self.disable_force_downsampling = disable_force_downsampling
         self.print_trace_id = print_trace_id
         self.add_info: AddInfo | None = None
-        self.reports_path = reports_path
         self.search_duration_seconds: float | None = None
-        self.report_file_path: str | None = None
+        self.report_html: str | None = None
 
         if search_id:
             search_task = SearchTask(search_id, rest_client=self.rest_client, logger=self.logger)
@@ -1108,8 +1110,8 @@ class FeaturesEnricher(TransformerMixin):
 
                     # 1 If client features are presented - fit and predict with KFold estimator
                     # on etalon features and calculate baseline metric
-                    baseline_metric = None
                     baseline_estimator = None
+                    baseline_cv_result = None
                     updating_shaps = None
                     custom_loss_add_params = get_additional_params_custom_loss(
                         self.loss, model_task_type, logger=self.logger
@@ -1133,22 +1135,23 @@ class FeaturesEnricher(TransformerMixin):
                         baseline_cv_result = baseline_estimator.cross_val_predict(
                             fitting_X, y_sorted, self.baseline_score_column
                         )
-                        baseline_metric = baseline_cv_result.get_display_metric()
-                        if baseline_metric is None:
+                        if baseline_cv_result.metric is None:
                             self.logger.info(
                                 f"Baseline {metric} on train client features is None (maybe all features was removed)"
                             )
                             baseline_estimator = None
                         else:
-                            self.logger.info(f"Baseline {metric} on train client features: {baseline_metric}")
+                            self.logger.info(
+                                f"Baseline {metric} on train client features: {baseline_cv_result.get_display_metric()}"
+                            )
                         updating_shaps = baseline_cv_result.shap_values
 
                     # 2 Fit and predict with KFold estimator on enriched tds
                     # and calculate final metric (and uplift)
-                    enriched_metric = None
                     uplift = None
                     uplift_perc = None
                     enriched_estimator = None
+                    enriched_cv_result = None
                     ensemble_score_column = self._get_ensemble_score_column(fitting_X, fitting_enriched_X)
 
                     def evaluate_enriched(score_column, description: str):
@@ -1167,17 +1170,16 @@ class FeaturesEnricher(TransformerMixin):
                         cv_result = wrapper.cross_val_predict(
                             fitting_enriched_X, enriched_y_sorted, score_column
                         )
-                        display_metric = cv_result.get_display_metric()
-                        if display_metric is None:
+                        if cv_result.metric is None:
                             self.logger.warning(f"Enriched {metric} {description} is None")
-                            return None, None, cv_result.shap_values, None, None
-                        self.logger.info(f"Enriched {metric} {description}: {display_metric}")
+                            return None, cv_result, None, None
+                        self.logger.info(f"Enriched {metric} {description}: {cv_result.get_display_metric()}")
                         sample_uplift = None
                         sample_uplift_perc = None
-                        if baseline_metric is not None:
+                        if baseline_cv_result is not None and baseline_cv_result.metric is not None:
                             sample_uplift = (cv_result.metric - baseline_cv_result.metric) * multiplier
                             sample_uplift_perc = sample_uplift / abs(baseline_cv_result.metric) * 100
-                        return wrapper, display_metric, cv_result.shap_values, sample_uplift, sample_uplift_perc
+                        return wrapper, cv_result, sample_uplift, sample_uplift_perc
 
                     if ensemble_score_column is not None:
                         self.logger.info(
@@ -1186,14 +1188,14 @@ class FeaturesEnricher(TransformerMixin):
                         )
                         (
                             enriched_estimator,
-                            enriched_metric,
-                            updating_shaps,
+                            enriched_cv_result,
                             uplift,
                             uplift_perc,
                         ) = evaluate_enriched(
                             ensemble_score_column,
                             f"on ensemble score column {ensemble_score_column}",
                         )
+                        updating_shaps = enriched_cv_result.shap_values
                     elif set(fitting_X.columns) != set(fitting_enriched_X.columns):
                         self.logger.info(
                             f"Calculate enriched {metric} on train combined "
@@ -1201,11 +1203,11 @@ class FeaturesEnricher(TransformerMixin):
                         )
                         (
                             enriched_estimator,
-                            enriched_metric,
-                            updating_shaps,
+                            enriched_cv_result,
                             uplift,
                             uplift_perc,
                         ) = evaluate_enriched(None, "on train combined features")
+                        updating_shaps = enriched_cv_result.shap_values
 
                     train_metrics = {
                         self.bundle.get("quality_metrics_segment_header"): self.bundle.get(
@@ -1223,14 +1225,22 @@ class FeaturesEnricher(TransformerMixin):
                             np.mean(y_sorted),
                             4,
                         )
-                    if baseline_metric is not None:
-                        train_metrics[self.bundle.get("quality_metrics_baseline_header").format(metric)] = (
-                            baseline_metric
-                        )
-                    if enriched_metric is not None:
-                        train_metrics[self.bundle.get("quality_metrics_enriched_header").format(metric)] = (
-                            enriched_metric
-                        )
+                    put_cv_metric(
+                        train_metrics,
+                        "quality_metrics_baseline_header",
+                        "quality_metrics_baseline_std_header",
+                        baseline_cv_result,
+                        metric,
+                        self.bundle,
+                    )
+                    put_cv_metric(
+                        train_metrics,
+                        "quality_metrics_enriched_header",
+                        "quality_metrics_enriched_std_header",
+                        enriched_cv_result,
+                        metric,
+                        self.bundle,
+                    )
                     if uplift is not None:
                         train_metrics[self.bundle.get("quality_metrics_uplift_header")] = round(uplift, 3)
                         train_metrics[self.bundle.get("quality_metrics_uplift_perc_header")] = (
@@ -1262,12 +1272,13 @@ class FeaturesEnricher(TransformerMixin):
                                 etalon_eval_results = baseline_estimator.calculate_metric(
                                     eval_X_sorted, eval_y_sorted, self.baseline_score_column
                                 )
-                                etalon_eval_metric = etalon_eval_results.get_display_metric()
                                 self.logger.info(
-                                    f"Baseline {metric} on eval set {idx + 1} client features: {etalon_eval_metric}"
+                                    "Baseline {} on eval set {} client features: {}".format(
+                                        metric, idx + 1, etalon_eval_results.get_display_metric()
+                                    )
                                 )
                             else:
-                                etalon_eval_metric = None
+                                etalon_eval_results = None
 
                             if enriched_estimator is not None:
                                 self.logger.info(
@@ -1277,14 +1288,20 @@ class FeaturesEnricher(TransformerMixin):
                                 enriched_eval_results = enriched_estimator.calculate_metric(
                                     enriched_eval_X_sorted, enriched_eval_y_sorted, ensemble_score_column
                                 )
-                                enriched_eval_metric = enriched_eval_results.get_display_metric()
                                 self.logger.info(
-                                    f"Enriched {metric} on eval set {idx + 1} combined features: {enriched_eval_metric}"
+                                    "Enriched {} on eval set {} combined features: {}".format(
+                                        metric, idx + 1, enriched_eval_results.get_display_metric()
+                                    )
                                 )
                             else:
-                                enriched_eval_metric = None
+                                enriched_eval_results = None
 
-                            if etalon_eval_metric is not None and enriched_eval_metric is not None:
+                            if (
+                                etalon_eval_results is not None
+                                and etalon_eval_results.metric is not None
+                                and enriched_eval_results is not None
+                                and enriched_eval_results.metric is not None
+                            ):
                                 eval_uplift = (enriched_eval_results.metric - etalon_eval_results.metric) * multiplier
                                 eval_uplift_perc = eval_uplift / abs(etalon_eval_results.metric) * 100
                             else:
@@ -1308,14 +1325,22 @@ class FeaturesEnricher(TransformerMixin):
                                     np.mean(eval_y_sorted),
                                     4,
                                 )
-                            if etalon_eval_metric is not None:
-                                eval_metrics[self.bundle.get("quality_metrics_baseline_header").format(metric)] = (
-                                    etalon_eval_metric
-                                )
-                            if enriched_eval_metric is not None:
-                                eval_metrics[self.bundle.get("quality_metrics_enriched_header").format(metric)] = (
-                                    enriched_eval_metric
-                                )
+                            put_cv_metric(
+                                eval_metrics,
+                                "quality_metrics_baseline_header",
+                                "quality_metrics_baseline_std_header",
+                                etalon_eval_results,
+                                metric,
+                                self.bundle,
+                            )
+                            put_cv_metric(
+                                eval_metrics,
+                                "quality_metrics_enriched_header",
+                                "quality_metrics_enriched_std_header",
+                                enriched_eval_results,
+                                metric,
+                                self.bundle,
+                            )
                             if eval_uplift is not None:
                                 eval_metrics[self.bundle.get("quality_metrics_uplift_header")] = round(eval_uplift, 3)
                                 eval_metrics[self.bundle.get("quality_metrics_uplift_perc_header")] = (
@@ -1352,8 +1377,9 @@ class FeaturesEnricher(TransformerMixin):
                     elif uplift_col in metrics_df.columns and (metrics_df[uplift_col] < 0).any():
                         self.logger.warning("Uplift is negative")
 
+                    self.metrics_raw = metrics_df
                     self.metrics_metric_name = metric
-                    return metrics_df
+                    return format_metrics_for_display(metrics_df, metric, self.bundle)
             except Exception as e:
                 error_message = "Failed to calculate metrics" + (
                     " with validation error" if isinstance(e, ValidationError) else ""
@@ -2274,9 +2300,6 @@ class FeaturesEnricher(TransformerMixin):
             return None
         return ensemble[0]
 
-    def _reports_dir(self) -> Path:
-        return Path(self.reports_path) if self.reports_path else Path.cwd() / "reports"
-
     def _reference_rows(self) -> int | None:
         if self.X is None:
             return None
@@ -2299,23 +2322,19 @@ class FeaturesEnricher(TransformerMixin):
             search_duration_seconds=self.search_duration_seconds,
             reference_rows=self._reference_rows(),
             samples=self._report_sample_names(),
-            metrics_df=self.metrics,
+            metrics_df=self.metrics_raw if self.metrics_raw is not None else self.metrics,
             metric_name=self.metrics_metric_name,
+            model_features=self._ensemble_model_feature_count(),
+            is_binary=self.model_task_type == ModelTaskType.BINARY,
             bundle=self.bundle,
         )
 
-    def _write_score_report(self) -> str | None:
+    def _score_report_html(self) -> str | None:
         if self._search_task is None or not self._has_single_ensemble_score():
             return None
         report_data = self._assemble_report_data()
-        html = generate_html_report(report_data)
-        reports_dir = self._reports_dir()
-        reports_dir.mkdir(parents=True, exist_ok=True)
-        path = reports_dir / f"upgini-report-{report_data.metadata.search_id}.html"
-        path.write_text(html, encoding="utf-8")
-        self.report_file_path = str(path)
-        self.logger.info(f"Score report saved to {path}")
-        return self.report_file_path
+        self.report_html = generate_html_report(report_data)
+        return self.report_html
 
     def _is_ensemble_feature(self, column_name: str) -> bool:
         renaming = self.fit_columns_renaming or {}
@@ -2325,15 +2344,20 @@ class FeaturesEnricher(TransformerMixin):
             return False
         return bool(aliases & self._column_name_aliases(list(ensemble_names), renaming))
 
-    def _ensemble_feature_names_from_metadata(self) -> set[str]:
+    def _ensemble_generated_metadata(self):
         autofe_meta = self._search_task.get_autofe_metadata() if self._search_task else None
         if not autofe_meta:
-            return set()
-        names: set[str] = set()
+            return []
+        matched = []
         for meta in autofe_meta:
             op = EnsembleModel.from_formula(meta.formula.split("(")[0])
-            if op is None:
-                continue
+            if op is not None:
+                matched.append((meta, op))
+        return matched
+
+    def _ensemble_feature_names_from_metadata(self) -> set[str]:
+        names: set[str] = set()
+        for meta, op in self._ensemble_generated_metadata():
             feature = (
                 Feature(op, [])
                 .set_display_index(meta.display_index)
@@ -2345,6 +2369,14 @@ class FeaturesEnricher(TransformerMixin):
                 names.add(meta.alias)
         return names
 
+    def _ensemble_model_feature_count(self) -> int | None:
+        names = {
+            column.original_name
+            for meta, _ in self._ensemble_generated_metadata()
+            for column in meta.base_columns
+        }
+        return len(names) or None
+
     def _psi_exceeds_threshold(self, psi: float | None, threshold: float) -> bool:
         return psi is not None and not pd.isna(psi) and psi > threshold
 
@@ -4219,7 +4251,9 @@ if response.status_code == 200:
         self._fit_match_search_keys = None
         self.__cached_sampled_datasets = dict()
         self.metrics = None
+        self.metrics_raw = None
         self.metrics_metric_name = None
+        self.report_html = None
         self.fit_columns_renaming = None
         self.fit_dropped_features = set()
         self.fit_generated_features = []
@@ -6037,13 +6071,16 @@ if response.status_code == 200:
 
     def __show_report_button(self, display_id: str | None = None, display_handle=None):
         try:
-            report_path = self._write_score_report()
-            if report_path is not None:
+            report_html = self._score_report_html() or self.report_html
+            if report_html:
                 if not ipython_available():
-                    print(f"Full report saved to {report_path}")
                     return
+                search_id = self._search_task.search_task_id if self._search_task is not None else (self.search_id or "")
                 return show_button_open_report(
-                    report_path, display_id=display_id, display_handle=display_handle
+                    report_html,
+                    download_name=f"upgini-report-{search_id}.html",
+                    display_id=display_id,
+                    display_handle=display_handle,
                 )
 
             eval_sets_drift_df = self._get_eval_sets_drift_summary()

{upgini-1.2.167a4220.dev1 → upgini-1.2.167a4220.dev3}/src/upgini/metrics.py

@@ -253,12 +253,46 @@ class _CrossValResults:
     shap_values: Optional[Dict[str, float]]
 
     def get_display_metric(self) -> Optional[str]:
-        if self.metric is None:
-            return None
-        elif self.metric_std is None:
-            return f"{self.metric:.3f}"
-        else:
-            return f"{self.metric:.3f} ± {self.metric_std:.3f}"
+        return format_display_metric(self.metric, self.metric_std)
+
+
+def format_display_metric(metric: Optional[float], metric_std: Optional[float] = None) -> Optional[str]:
+    if metric is None or pd.isna(metric):
+        return None
+    if metric_std is None or pd.isna(metric_std):
+        return f"{float(metric):.3f}"
+    return f"{float(metric):.3f} ± {float(metric_std):.3f}"
+
+
+def format_metrics_for_display(metrics_df: pd.DataFrame, metric_name: str, bundle) -> pd.DataFrame:
+    display = metrics_df.copy()
+    drop: list[str] = []
+    for value_key, std_key in (
+        ("quality_metrics_baseline_header", "quality_metrics_baseline_std_header"),
+        ("quality_metrics_enriched_header", "quality_metrics_enriched_std_header"),
+    ):
+        col = bundle.get(value_key).format(metric_name)
+        std_col = bundle.get(std_key).format(metric_name)
+        if col in display.columns:
+            stds = display[std_col] if std_col in display.columns else [None] * len(display)
+            display[col] = [format_display_metric(value, std) for value, std in zip(display[col], stds)]
+        if std_col in display.columns:
+            drop.append(std_col)
+    return display.drop(columns=drop, errors="ignore")
+
+
+def put_cv_metric(
+    row: dict,
+    value_key: str,
+    std_key: str,
+    result: Optional[_CrossValResults],
+    metric_name: str,
+    bundle,
+) -> None:
+    if result is None or result.metric is None:
+        return
+    row[bundle.get(value_key).format(metric_name)] = result.metric
+    row[bundle.get(std_key).format(metric_name)] = result.metric_std
 
 
 def is_numeric_object(x: pd.Series) -> bool:

{upgini-1.2.167a4220.dev1 → upgini-1.2.167a4220.dev3}/src/upgini/report/assemble.py

@@ -6,7 +6,7 @@ from typing import Optional
 import pandas as pd
 
 from upgini.__about__ import __version__
-from upgini.report.data import QualitySample, ReportData, ReportMetadata
+from upgini.report.data import QualitySample, ReportData, ReportMetadata, SampleStats, SearchResultsSummary
 from upgini.resource_bundle import ResourceBundle
 
 
@@ -34,9 +34,13 @@ def assemble_report_data(
     samples: Optional[list[str]] = None,
     metrics_df: Optional[pd.DataFrame] = None,
     metric_name: Optional[str] = None,
+    model_features: Optional[int] = None,
+    is_binary: bool = False,
+    logo_url: Optional[str] = None,
     bundle: ResourceBundle,
 ) -> ReportData:
     generated_at = generated_at or datetime.now(timezone.utc)
+    sample_names = list(samples or [])
     return ReportData(
         metadata=ReportMetadata(
             search_id=search_id,
@@ -45,9 +49,13 @@ def assemble_report_data(
             search_keys=list(search_keys or []),
             search_duration=format_search_duration(search_duration_seconds),
             reference_rows=reference_rows,
-            samples=list(samples or []),
+            samples=sample_names,
+            logo_url=logo_url or None,
         ),
         quality_by_sample=_quality_samples(metrics_df, metric_name, bundle),
+        summary=SearchResultsSummary(model_features=model_features),
+        sample_stats=_sample_stats(sample_names, metrics_df, bundle),
+        is_binary=is_binary,
     )
 
 
@@ -61,6 +69,8 @@ def _quality_samples(
     uplift_pct_col = bundle.get("quality_metrics_uplift_perc_header")
     baseline_col = bundle.get("quality_metrics_baseline_header").format(metric_name) if metric_name else None
     enriched_col = bundle.get("quality_metrics_enriched_header").format(metric_name) if metric_name else None
+    baseline_std_col = bundle.get("quality_metrics_baseline_std_header").format(metric_name) if metric_name else None
+    enriched_std_col = bundle.get("quality_metrics_enriched_std_header").format(metric_name) if metric_name else None
 
     samples: list[QualitySample] = []
     for _, row in metrics_df.iterrows():
@@ -68,8 +78,10 @@ def _quality_samples(
             QualitySample(
                 evaluation_scope=(_as_str(row[segment_col]) or "") if segment_col in metrics_df.columns else "",
                 metric=metric_name or "",
-                baseline=_as_str(row[baseline_col]) if baseline_col in metrics_df.columns else None,
-                enriched=_as_str(row[enriched_col]) if enriched_col in metrics_df.columns else None,
+                baseline=_as_float(row[baseline_col]) if baseline_col in metrics_df.columns else None,
+                baseline_std=_as_float(row[baseline_std_col]) if baseline_std_col in metrics_df.columns else None,
+                enriched=_as_float(row[enriched_col]) if enriched_col in metrics_df.columns else None,
+                enriched_std=_as_float(row[enriched_std_col]) if enriched_std_col in metrics_df.columns else None,
                 uplift=_as_float(row[uplift_col]) if uplift_col in metrics_df.columns else None,
                 relative_uplift=_as_str(row[uplift_pct_col]) if uplift_pct_col in metrics_df.columns else None,
             )
@@ -77,9 +89,37 @@ def _quality_samples(
     return samples
 
 
+def _sample_stats(
+    sample_names: list[str], metrics_df: Optional[pd.DataFrame], bundle: ResourceBundle
+) -> list[SampleStats]:
+    segment_col = bundle.get("quality_metrics_segment_header")
+    rows_col = bundle.get("quality_metrics_rows_header")
+    mean_col = bundle.get("quality_metrics_mean_target_header")
+    by_name: dict[str, SampleStats] = {}
+    if metrics_df is not None and not metrics_df.empty and segment_col in metrics_df.columns:
+        for _, row in metrics_df.iterrows():
+            name = _as_str(row[segment_col])
+            if not name:
+                continue
+            by_name[name] = SampleStats(
+                sample=name,
+                rows=_as_int(row[rows_col]) if rows_col in metrics_df.columns else None,
+                mean_target=_as_float(row[mean_col]) if mean_col in metrics_df.columns else None,
+            )
+    names = sample_names or list(by_name)
+    stats = [by_name.get(name) or SampleStats(sample=name) for name in names]
+    seen = set(names)
+    stats.extend(sample for name, sample in by_name.items() if name not in seen)
+    return stats
+
+
 def _as_str(value) -> Optional[str]:
     return None if pd.isna(value) else str(value)
 
 
 def _as_float(value) -> Optional[float]:
     return None if pd.isna(value) else float(value)
+
+
+def _as_int(value) -> Optional[int]:
+    return None if pd.isna(value) else int(value)

{upgini-1.2.167a4220.dev1 → upgini-1.2.167a4220.dev3}/src/upgini/report/data.py

@@ -13,17 +13,35 @@ class ReportMetadata:
     search_duration: Optional[str] = None
     reference_rows: Optional[int] = None
     samples: list[str] = field(default_factory=list)
+    logo_url: Optional[str] = None
 
 
 @dataclass
 class QualitySample:
     evaluation_scope: str
     metric: str
-    baseline: Optional[str] = None
-    enriched: Optional[str] = None
+    baseline: Optional[float] = None
+    baseline_std: Optional[float] = None
+    enriched: Optional[float] = None
+    enriched_std: Optional[float] = None
     uplift: Optional[float] = None
     relative_uplift: Optional[str] = None
 
+    @property
+    def std(self) -> Optional[float]:
+        return self.enriched_std if self.enriched_std is not None else self.baseline_std
+
+
+@dataclass
+class SampleStats:
+    sample: str
+    rows: Optional[int] = None
+    mean_target: Optional[float] = None
+    date_range: Optional[str] = None
+    labeled: Optional[int] = None
+    unlabeled: Optional[int] = None
+    positive: Optional[int] = None
+
 
 @dataclass
 class FeatureRow:
@@ -66,6 +84,8 @@ class ReportData:
     metadata: ReportMetadata
     quality_by_sample: list[QualitySample] = field(default_factory=list)
     summary: SearchResultsSummary = field(default_factory=SearchResultsSummary)
+    sample_stats: list[SampleStats] = field(default_factory=list)
+    is_binary: bool = False
     features: list[FeatureRow] = field(default_factory=list)
     sources: list[SourceRow] = field(default_factory=list)
     autofe: list[dict[str, str]] = field(default_factory=list)