diff --git a/eris/__main__.py b/eris/__main__.py
index 21e7de7..8332567 100755
--- a/eris/__main__.py
+++ b/eris/__main__.py
@@ -794,7 +794,7 @@ class Screen:
             path_colored = lscolors.path_colored(path)
             self._log.log_message([in_green("Patching file: "), path_colored])
             subprocess.run(f"{result.tool.patch_command} {path} | patch -p0", shell=True,
-                           stdout=subprocess.PIPE, stderr=subprocess.PIPE)
+                           capture_output=True)
             subprocess.run(["touch", path])
 
     def toggle_status_style(self):
diff --git a/eris/tools.toml b/eris/tools.toml
index 0f61767..546d7ed 100644
--- a/eris/tools.toml
+++ b/eris/tools.toml
@@ -103,7 +103,7 @@ tools_for_extensions = [
   dependencies = ["python3-isort", "python3-colorama"]
   url = "https://pycqa.github.io/isort/"
   command = "/usr/bin/python3 -m isort --check-only --diff --color"
-  patch_command = "/usr/bin/python3 -m isort --diff"
+  patch_command = "/usr/bin/python3 -m isort --overwrite-in-place"
   has_color = true
 
 [perl_syntax]