Fix Numpy v2 compatibility (backport of #223, fixes #219)

RalfG · RalfG · commit 0cac73dd9f25 · 2025-04-15T17:36:14.000+02:00
diff --git a/ms2rescore/__init__.py b/ms2rescore/__init__.py
@@ -1,6 +1,6 @@
 """MS²Rescore: Sensitive PSM rescoring with predicted MS² peak intensities and RTs."""
 
-__version__ = "3.1.4"
+__version__ = "3.1.5"
 
 from warnings import filterwarnings
 
diff --git a/ms2rescore/feature_generators/deeplc.py b/ms2rescore/feature_generators/deeplc.py
@@ -128,9 +128,9 @@ def add_features(self, psm_list: PSMList) -> None:
             for run, psms in runs.items():
                 peptide_rt_diff_dict = defaultdict(
                     lambda: {
-                        "observed_retention_time_best": np.Inf,
-                        "predicted_retention_time_best": np.Inf,
-                        "rt_diff_best": np.Inf,
+                        "observed_retention_time_best": np.inf,
+                        "predicted_retention_time_best": np.inf,
+                        "rt_diff_best": np.inf,
                     }
                 )
                 logger.info(

Original file line number	Diff line number	Diff line change
`@@ -128,9 +128,9 @@ def add_features(self, psm_list: PSMList) -> None:`
`128`	`128`	`for run, psms in runs.items():`
`129`	`129`	`peptide_rt_diff_dict = defaultdict(`
`130`	`130`	`lambda: {`
`131`		`- "observed_retention_time_best": np.Inf,`
`132`		`- "predicted_retention_time_best": np.Inf,`
`133`		`- "rt_diff_best": np.Inf,`
	`131`	`+ "observed_retention_time_best": np.inf,`
	`132`	`+ "predicted_retention_time_best": np.inf,`
	`133`	`+ "rt_diff_best": np.inf,`
`134`	`134`	`}`
`135`	`135`	`)`
`136`	`136`	`logger.info(`