move files from fdr_analysis to fdrx module

MannLabs · Jan 17, 2025 · ceabe7c · ceabe7c
1 parent 7a1f4a7
commit ceabe7c
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Showing 6 changed files with 3 additions and 4 deletions.
diff --git a/alphadia/fdrexperimental.py b/alphadia/fdrexperimental.py
@@ -1179,7 +1179,6 @@ def fit(self, x: np.ndarray, y: np.ndarray):
                 x_train_batch = x_train[batch_start:batch_stop]
                 y_train_batch = y_train[batch_start:batch_stop]
                 y_pred = self.network(x_train_batch)
-
                 loss_value = loss(y_pred, y_train_batch)
 
                 self.network.zero_grad()

diff --git a/alphadia/fdr_analysis/models/__init__.py → alphadia/fdrx/models/__init__.py b/alphadia/fdr_analysis/models/__init__.py → alphadia/fdrx/models/__init__.py
diff --git a/...dr_analysis/models/logistic_regression.py → alphadia/fdrx/models/logistic_regression.py b/...dr_analysis/models/logistic_regression.py → alphadia/fdrx/models/logistic_regression.py
diff --git a/...dr_analysis/models/two_step_classifier.py → alphadia/fdrx/models/two_step_classifier.py b/...dr_analysis/models/two_step_classifier.py → alphadia/fdrx/models/two_step_classifier.py
@@ -285,4 +285,4 @@ def apply_absolute_transformations(
                 f"column '{col}' is not present in df, therefore abs() was not applied."
             )
 
-    return df
+    return df
diff --git a/alphadia/workflow/manager.py b/alphadia/workflow/manager.py
@@ -20,7 +20,7 @@
 import alphadia
 from alphadia import fdr
 from alphadia.calibration.property import Calibration, calibration_model_provider
-from alphadia.fdr_analysis.models import TwoStepClassifier
+from alphadia.fdrx.models import TwoStepClassifier
 from alphadia.workflow import reporting
 from alphadia.workflow.config import Config
 

diff --git a/alphadia/workflow/peptidecentric.py b/alphadia/workflow/peptidecentric.py
@@ -15,7 +15,7 @@
 
 # alphadia imports
 from alphadia import fragcomp, plexscoring, utils
-from alphadia.fdr_analysis.models import LogisticRegressionClassifier, TwoStepClassifier
+from alphadia.fdrx.models import LogisticRegressionClassifier, TwoStepClassifier
 from alphadia.peakgroup import search
 from alphadia.workflow import base, manager, optimization
 from alphadia.workflow.config import Config