Merge pull request #356 from jkmckenna/0.4.0

jkmckenna · web-flow · commit e53c46a65494 · 2026-02-05T18:21:22.000-08:00
0.4.0
diff --git a/src/smftools/_version.py b/src/smftools/_version.py
@@ -1,3 +1,3 @@
 from __future__ import annotations
 
-__version__ = "0.3.2"
+__version__ = "0.4.0"
diff --git a/src/smftools/cli/preprocess_adata.py b/src/smftools/cli/preprocess_adata.py
@@ -349,7 +349,7 @@ def preprocess_adata_core(
     calculate_coverage(
         adata,
         ref_column=cfg.reference_column,
-        position_nan_threshold=cfg.position_max_nan_threshold,
+        position_nan_threshold=1 - cfg.position_max_nan_threshold,
         smf_modality=smf_modality,
         target_layer=cfg.output_binary_layer_name,
     )
@@ -448,7 +448,7 @@ def preprocess_adata_core(
     calculate_coverage(
         adata,
         ref_column=cfg.reference_column,
-        position_nan_threshold=cfg.position_max_nan_threshold,
+        position_nan_threshold=1 - cfg.position_max_nan_threshold,
         smf_modality=smf_modality,
         target_layer=cfg.output_binary_layer_name,
         force_redo=True,

Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,3 @@`
`1`	`1`	`from __future__ import annotations`
`2`	`2`
`3`		`-__version__ = "0.3.2"`
	`3`	`+__version__ = "0.4.0"`