diff --git a/pre_commit/commands/clean.py b/pre_commit/commands/clean.py
index 75d0acc0..5c763029 100644
--- a/pre_commit/commands/clean.py
+++ b/pre_commit/commands/clean.py
@@ -7,9 +7,9 @@ from pre_commit import output
 from pre_commit.util import rmtree
 
 
-def clean(runner):
+def clean(store):
     legacy_path = os.path.expanduser('~/.pre-commit')
-    for directory in (runner.store.directory, legacy_path):
+    for directory in (store.directory, legacy_path):
         if os.path.exists(directory):
             rmtree(directory)
             output.write_line('Cleaned {}.'.format(directory))
diff --git a/pre_commit/main.py b/pre_commit/main.py
index f9882368..4ff8073d 100644
--- a/pre_commit/main.py
+++ b/pre_commit/main.py
@@ -243,7 +243,7 @@ def main(argv=None):
         elif args.command == 'uninstall':
             return uninstall(runner, hook_type=args.hook_type)
         elif args.command == 'clean':
-            return clean(runner)
+            return clean(runner.store)
         elif args.command == 'autoupdate':
             if args.tags_only:
                 logger.warning('--tags-only is the default')
diff --git a/tests/commands/clean_test.py b/tests/commands/clean_test.py
index fddd444d..3bfa46a3 100644
--- a/tests/commands/clean_test.py
+++ b/tests/commands/clean_test.py
@@ -6,7 +6,6 @@ import mock
 import pytest
 
 from pre_commit.commands.clean import clean
-from pre_commit.util import rmtree
 
 
 @pytest.fixture(autouse=True)
@@ -21,17 +20,16 @@ def fake_old_dir(tempdir_factory):
         yield fake_old_dir
 
 
-def test_clean(runner_with_mocked_store, fake_old_dir):
+def test_clean(store, fake_old_dir):
+    store.require_created()
     assert os.path.exists(fake_old_dir)
-    assert os.path.exists(runner_with_mocked_store.store.directory)
-    clean(runner_with_mocked_store)
+    assert os.path.exists(store.directory)
+    clean(store)
     assert not os.path.exists(fake_old_dir)
-    assert not os.path.exists(runner_with_mocked_store.store.directory)
+    assert not os.path.exists(store.directory)
 
 
-def test_clean_empty(runner_with_mocked_store):
-    """Make sure clean succeeds when the directory doesn't exist."""
-    rmtree(runner_with_mocked_store.store.directory)
-    assert not os.path.exists(runner_with_mocked_store.store.directory)
-    clean(runner_with_mocked_store)
-    assert not os.path.exists(runner_with_mocked_store.store.directory)
+def test_clean_idempotent(store):
+    assert not os.path.exists(store.directory)
+    clean(store)
+    assert not os.path.exists(store.directory)
diff --git a/tests/conftest.py b/tests/conftest.py
index c0e13186..eb2ecf6e 100644
--- a/tests/conftest.py
+++ b/tests/conftest.py
@@ -11,10 +11,8 @@ import mock
 import pytest
 import six
 
-import pre_commit.constants as C
 from pre_commit import output
 from pre_commit.logging_handler import add_logging_handler
-from pre_commit.runner import Runner
 from pre_commit.store import Store
 from pre_commit.util import cmd_output
 from testing.fixtures import git_dir
@@ -151,11 +149,6 @@ def store(tempdir_factory):
     yield Store(os.path.join(tempdir_factory.get(), '.pre-commit'))
 
 
-@pytest.fixture
-def runner_with_mocked_store(mock_out_store_directory):
-    yield Runner('/', C.CONFIG_FILE)
-
-
 @pytest.fixture
 def log_info_mock():
     with mock.patch.object(logging.getLogger('pre_commit'), 'info') as mck: