fix output write

openproblems-bio · Sep 26, 2024 · d2025c2 · d2025c2
1 parent 44f6171
commit d2025c2
Showing 1 changed file with 4 additions and 4 deletions.
diff --git a/src/data_processors/process_dataset/script.py b/src/data_processors/process_dataset/script.py
@@ -42,11 +42,11 @@
 # ...filter transcripts tables
 
 # Save the single-cell data
-adata.write_h5ad(par["output_scrnaseq"])
+adata.write_h5ad(par["output_sc"], compression="gzip")
 
 # remove directory if it exists
-if os.path.exists(par["output_ist"]):
-    shutil.rmtree(par["output_ist"])
+if os.path.exists(par["output_sp"]):
+    shutil.rmtree(par["output_sp"])
 
 # Save the spatial data
-sdata.write(par["output_ist"], overwrite=True)
+sdata.write(par["output_sp"], overwrite=True)