tif extensions

htem · Nov 30, 2023 · 7245e30 · 7245e30
1 parent b1abbac
commit 7245e30
Showing 1 changed file with 5 additions and 4 deletions.
diff --git a/src/autoseg/train_job.py b/src/autoseg/train_job.py
@@ -8,20 +8,21 @@ def train_model(
     warmup: int = 100000,
     raw_file: str = "path/to/.zarr/or/.n5/or/.tiff",
     rewrite_file: str = "./rewritten.zarr",
-    rewrite_ds: str = "rewritten_volume",
+    rewrite_ds: str = "training_raw",
     out_file: str = "./raw_predictions.zarr",
     voxel_size: int = 33,
     save_every=2500,
 ) -> None:
 
-    # TODO: add util funcs for generating masks 
-    if raw_file.endswith(".tiff"):
+    # TODO: add util funcs for generating masks, pulling paintings
+    if raw_file.endswith(".tiff") or raw_file.endswith(".tif"):
         tiff_to_zarr(tiff_file=raw_file,
                      out_file=rewrite_file,
                      out_ds=rewrite_ds)
+        raw_file: str = rewrite_file
 
 
-    model_type = model_type.lower()
+    model_type: str = model_type.lower()
     if model_type == "mtlsd":
         mtlsd_train(
             iterations=iterations,