patchworks 0.11.4__tar.gz → 0.11.5__tar.gz

{patchworks-0.11.4 → patchworks-0.11.5}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: patchworks
-Version: 0.11.4
+Version: 0.11.5
 Summary: Tiled processing of arbitrarily large images with globally consistent labels
 Project-URL: Homepage, https://github.com/imcf/patchworks
 Project-URL: Issues, https://github.com/imcf/patchworks/issues

{patchworks-0.11.4 → patchworks-0.11.5}/workflow/rules/common.smk

@@ -9,6 +9,10 @@ IMAGE = f"{WORK}/image.zarr"
 IMAGE_OK = f"{IMAGE}/zarr.json"
 TILES = f"{WORK}/tiles.json"
 STAGE = f"{WORK}/stage.zarr"
+# Completion sentinel for the stage store. Tracking a touch()ed marker instead
+# of directory(STAGE) keeps Snakemake from deleting/recreating the store on a
+# re-run and avoids directory-mtime quirks (same touch() discipline as sopa).
+STAGE_OK = f"{STAGE}.done"
 
 
 def occupied_done(wildcards):

{patchworks-0.11.4 → patchworks-0.11.5}/workflow/rules/segment.smk

@@ -5,7 +5,7 @@ checkpoint prepare:
         IMAGE_OK,
     output:
         tiles=TILES,
-        stage=directory(STAGE),
+        stage=touch(STAGE_OK),
     script:
         "../scripts/prepare_tiles.py"
 
@@ -14,7 +14,7 @@ rule segment:
     """Segment one tile on a GPU and write it into the stage store."""
     input:
         tiles=TILES,
-        stage=STAGE,
+        stage=STAGE_OK,
         image=IMAGE_OK,
     output:
         f"{WORK}/seg/{{index}}.done",