Fix numpy v2 compatibility in DeepLC feature generator (np.inf); fixes #219

RalfG · RalfG · commit 7a88e3263557 · 2025-04-15T17:24:38.000+02:00
diff --git a/ms2rescore/feature_generators/deeplc.py b/ms2rescore/feature_generators/deeplc.py
@@ -131,9 +131,9 @@ 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
`@@ -131,9 +131,9 @@ def add_features(self, psm_list: PSMList) -> None:`
`131`	`131`	`for run, psms in runs.items():`
`132`	`132`	`peptide_rt_diff_dict = defaultdict(`
`133`	`133`	`lambda: {`
`134`		`- "observed_retention_time_best": np.Inf,`
`135`		`- "predicted_retention_time_best": np.Inf,`
`136`		`- "rt_diff_best": np.Inf,`
	`134`	`+ "observed_retention_time_best": np.inf,`
	`135`	`+ "predicted_retention_time_best": np.inf,`
	`136`	`+ "rt_diff_best": np.inf,`
`137`	`137`	`}`
`138`	`138`	`)`
`139`	`139`	`logger.info(`