exp run: account for repo root when staging git-deps

dvc/repo/reproduce.py

@@ -64,7 +64,9 @@ def _get_stage_files(stage: "Stage") -> typing.Iterator[str]:
         if (
             not dep.use_scm_ignore
             and dep.is_in_repo
-            and not stage.repo.dvcfs.isdvc(dep.fs_path)
+            and not stage.repo.dvcfs.isdvc(
+                stage.repo.dvcfs.from_os_path(str(dep))
+            )
         ):
             yield dep.fs_path
     for out in stage.outs:

tests/unit/repo/test_reproduce.py

@@ -1,3 +1,8 @@
+import os
+
+from dvc.repo.reproduce import _get_stage_files
+
+
 def test_number_reproduces(tmp_dir, dvc, mocker):
     reproduce_stage_mock = mocker.patch(
         "dvc.repo.reproduce._reproduce_stage", returns=[]
@@ -22,3 +27,42 @@ def test_number_reproduces(tmp_dir, dvc, mocker):
     dvc.reproduce(all_pipelines=True)
 
     assert reproduce_stage_mock.call_count == 5
+
+
+def test_get_stage_files(tmp_dir, dvc):
+    tmp_dir.dvc_gen("dvc-dep", "dvc-dep")
+    tmp_dir.gen("other-dep", "other-dep")
+
+    stage = dvc.stage.add(
+        name="stage",
+        cmd="foo",
+        deps=["dvc-dep", "other-dep"],
+        outs=["dvc-out"],
+        outs_no_cache=["other-out"],
+    )
+    result = set(_get_stage_files(stage))
+    assert result == {
+        stage.dvcfile.relpath,
+        str(tmp_dir / "other-dep"),
+        str(tmp_dir / "other-out"),
+    }
+
+
+def test_get_stage_files_wdir(tmp_dir, dvc):
+    tmp_dir.gen({"dir": {"dvc-dep": "dvc-dep", "other-dep": "other-dep"}})
+    dvc.add(os.path.join("dir", "dvc-dep"))
+
+    stage = dvc.stage.add(
+        name="stage",
+        cmd="foo",
+        wdir="dir",
+        deps=["dvc-dep", "other-dep"],
+        outs=["dvc-out"],
+        outs_no_cache=["other-out"],
+    )
+    result = set(_get_stage_files(stage))
+    assert result == {
+        stage.dvcfile.relpath,
+        str(tmp_dir / "dir" / "other-dep"),
+        str(tmp_dir / "dir" / "other-out"),
+    }