diff --git a/integration_tests/base_test.py b/integration_tests/base_test.py
index 21ed2e0f..b41326d3 100644
--- a/integration_tests/base_test.py
+++ b/integration_tests/base_test.py
@@ -67,6 +67,10 @@ def setup_method(self):
                 "You must register the codemod to a CodemodCollection."
             ) from exc
 
+    @property
+    def relative_code_path(self):
+        return os.path.relpath(self.code_path, SAMPLES_DIR)
+
     def _assert_run_fields(self, run, output_path):
         assert run["vendor"] == "pixee"
         assert run["tool"] == "codemodder-python"
@@ -74,12 +78,12 @@ def _assert_run_fields(self, run, output_path):
         assert run["elapsed"] != ""
         assert (
             run["commandLine"]
-            == f"codemodder {SAMPLES_DIR} --output {output_path} --codemod-include={self.codemod_wrapper.name} --path-include={self.code_path}"
+            == f"codemodder {SAMPLES_DIR} --output {output_path} --codemod-include={self.codemod_wrapper.name} --path-include={self.relative_code_path}"
         )
         assert run["directory"] == os.path.abspath(SAMPLES_DIR)
         assert run["sarifs"] == []
 
-    def _assert_results_fields(self, results, output_path):
+    def _assert_results_fields(self, results):
         assert len(results) == 1
         result = results[0]
         assert result["codemod"] == self.codemod_wrapper.id
@@ -94,9 +98,11 @@ def _assert_results_fields(self, results, output_path):
         # A codemod may change multiple files. For now we will
         # assert the resulting data for one file only.
         change = [
-            result for result in result["changeset"] if result["path"] == output_path
+            result
+            for result in result["changeset"]
+            if result["path"] == self.relative_code_path
         ][0]
-        assert change["path"] == output_path
+        assert change["path"] == self.relative_code_path
         assert change["diff"] == self.expected_diff
 
         assert len(change["changes"]) == self.num_changes
@@ -114,10 +120,7 @@ def _assert_codetf_output(self):
         run = codetf["run"]
         self._assert_run_fields(run, self.output_path)
         results = codetf["results"]
-        # CodeTf2 spec requires relative paths
-        self._assert_results_fields(
-            results, os.path.relpath(self.code_path, SAMPLES_DIR)
-        )
+        self._assert_results_fields(results)
 
     def check_code_before(self):
         with open(self.code_path, "r", encoding="utf-8") as f:
@@ -145,7 +148,7 @@ def test_file_rewritten(self):
             "--output",
             self.output_path,
             f"--codemod-include={self.codemod_wrapper.name}",
-            f"--path-include={self.code_path}",
+            f"--path-include={self.relative_code_path}",
         ]
 
         self.check_code_before()
diff --git a/src/codemodder/code_directory.py b/src/codemodder/code_directory.py
index b69ff655..d0a06cc5 100644
--- a/src/codemodder/code_directory.py
+++ b/src/codemodder/code_directory.py
@@ -49,10 +49,13 @@ def filter_files(
         else [x for x in (patterns or []) if ":" not in x]
     )
 
-    # Filter patterns should be relative to a parent_path, not absolute.
     # TODO: handle case when parent path is "."
-    patterns = [f"{parent_path}{x}" for x in patterns]
-
+    patterns = [
+        str(Path(parent_path) / Path(pat))
+        if not pat.startswith("*")
+        else parent_path + pat
+        for pat in patterns
+    ]
     return itertools.chain(*[fnmatch.filter(names, pattern) for pattern in patterns])
 
 
diff --git a/src/codemodder/codemodder.py b/src/codemodder/codemodder.py
index e697848c..5eed3680 100644
--- a/src/codemodder/codemodder.py
+++ b/src/codemodder/codemodder.py
@@ -3,7 +3,6 @@
 import logging
 import os
 import sys
-from textwrap import indent
 
 import libcst as cst
 from libcst.codemod import CodemodContext
diff --git a/src/codemodder/semgrep.py b/src/codemodder/semgrep.py
index ad3e93ee..78f6297e 100644
--- a/src/codemodder/semgrep.py
+++ b/src/codemodder/semgrep.py
@@ -37,7 +37,7 @@ def run(execution_context: CodemodExecutionContext, yaml_files: List[Path]) -> d
                 )
             )
         if execution_context.path_include:
-            # I don't know why but passing the parent path to include patterns has unexpected behavior
+            # Note: parent path is not passed with --include
             command.extend(
                 itertools.chain.from_iterable(
                     map(lambda f: ["--include", str(f)], execution_context.path_include)
diff --git a/tests/test_code_directory.py b/tests/test_code_directory.py
index 7a980804..debc55b1 100644
--- a/tests/test_code_directory.py
+++ b/tests/test_code_directory.py
@@ -138,3 +138,11 @@ def test_include_test_without_default_excludes(self, dir_structure):
     def test_extract_line_from_pattern(self):
         lines = file_line_patterns(Path("insecure_random.py"), ["insecure_*.py:3"])
         assert lines == [3]
+
+    def test_include_specific_file(self, dir_structure):
+        expected = ["empty_for_testing.py"]
+        files = match_files(
+            dir_structure / "samples" / "more_samples",
+            include_paths=["empty_for_testing.py"],
+        )
+        self._assert_expected(files, expected)