Fix subcellular location output filename

opentargets · Nov 19, 2024 · 8eab117 · 8eab117
1 parent e38f256
commit 8eab117
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Showing 3 changed files with 4 additions and 4 deletions.
diff --git a/pyproject.toml b/pyproject.toml
@@ -1,6 +1,6 @@
 [project]
 name = "ontoform"
-version = "24.1.0-alpha.3"
+version = "24.1.0-alpha.4"
 description = "Add your description here"
 readme = "README.md"
 requires-python = ">=3.12"

diff --git a/src/ontoform/steps/target.py b/src/ontoform/steps/target.py
@@ -14,7 +14,7 @@
     transformations=[
         FileTransformation(
             src_path='input/target-inputs/hpa/subcellular_location.tsv.zip',
-            dst_path=lambda _, f: f'input/target-inputs/hpa/subcellular_locations.{extension(f)}',
+            dst_path='input/target-inputs/hpa/subcellular_location.tsv.gz',
             transformer=SubcellularLocationTransformer,
         ),
         FileTransformation(

diff --git a/src/ontoform/transformers/target.py b/src/ontoform/transformers/target.py
@@ -19,10 +19,10 @@ def transform(self, src: BinaryIO, dst: BinaryIO, output_format: Format) -> None
 
 
 class SubcellularLocationSSLTransformer:
-    def transform(self, src: BinaryIO, dst: BinaryIO, format: Format) -> None:
+    def transform(self, src: BinaryIO, dst: BinaryIO, output_format: Format) -> None:
         # just change output format
         df = pl.read_csv(src, has_header=True, separator='\t')
-        write_format(df, dst, format)
+        write_format(df, dst, output_format)
 
 
 class EssentialityMatricesTransformer: