From faab93f37a2943d11c56bcb0bf199b0a1b241d8f Mon Sep 17 00:00:00 2001
From: Dorota Jarecka <djarecka@gmail.com>
Date: Fri, 19 Jan 2024 14:53:29 -0500
Subject: [PATCH 1/3] adding a simple addition to open remfile

---
 anndata/_core/file_backing.py | 5 ++++-
 pyproject.toml                | 1 +
 2 files changed, 5 insertions(+), 1 deletion(-)

diff --git a/anndata/_core/file_backing.py b/anndata/_core/file_backing.py
index c50a2ea8d..1b4833af5 100644
--- a/anndata/_core/file_backing.py
+++ b/anndata/_core/file_backing.py
@@ -6,6 +6,7 @@
 from typing import TYPE_CHECKING, Literal
 
 import h5py
+import remfile
 
 from ..compat import AwkArray, DaskArray, ZarrArray, ZarrGroup
 from .sparse_dataset import BaseCompressedSparseDataset
@@ -65,7 +66,9 @@ def filename(self) -> Path:
 
     @filename.setter
     def filename(self, filename: PathLike | None):
-        self._filename = None if filename is None else Path(filename)
+        self._filename = None if filename is None \
+            else filename if isinstance(filename, remfile.RemFile.RemFile) \
+            else Path(filename)
 
     def open(
         self,
diff --git a/pyproject.toml b/pyproject.toml
index f9f0b0d39..73dc646fa 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -43,6 +43,7 @@ dependencies = [
     "numpy>=1.16.5",                         # required by pandas 1.x
     "scipy>1.4",
     "h5py>=3",
+    "remfile",
     "exceptiongroup; python_version<'3.11'",
     "natsort",
     "packaging>=20",

From 48b436d172d8a12ba8346976f632a7a1665f2a48 Mon Sep 17 00:00:00 2001
From: Dorota Jarecka <djarecka@gmail.com>
Date: Fri, 19 Jan 2024 16:19:56 -0500
Subject: [PATCH 2/3] adding a simple test

---
 anndata/tests/test_readwrite.py | 12 ++++++++++++
 1 file changed, 12 insertions(+)

diff --git a/anndata/tests/test_readwrite.py b/anndata/tests/test_readwrite.py
index 4b59791fd..a1f2cdea2 100644
--- a/anndata/tests/test_readwrite.py
+++ b/anndata/tests/test_readwrite.py
@@ -797,3 +797,15 @@ def test_io_dtype(tmp_path, diskfmt, dtype):
     curr = read(pth)
 
     assert curr.X.dtype == dtype
+
+
+needs_remfile = pytest.mark.skipif(not find_spec("remfile"), reason="remfile is not installed")
+
+@needs_remfile
+def test_read_s3_remfile():
+    import remfile
+    # TODO: change to a different datafile?
+    url_had = "https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/expression_matrices/WMB-10Xv2/20230630/WMB-10Xv2-TH-log2.h5ad"
+    file_had = remfile.File(url_had)
+    data = ad.read_h5ad(file_had, backed='r')
+    assert data.X.shape == (131212, 32285)

From 18ddcd0970bd971a5e52486cbc89b7456f3925d4 Mon Sep 17 00:00:00 2001
From: "pre-commit-ci[bot]"
 <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Date: Fri, 19 Jan 2024 21:32:04 +0000
Subject: [PATCH 3/3] [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci
---
 anndata/_core/file_backing.py   | 8 ++++++--
 anndata/tests/test_readwrite.py | 8 ++++++--
 2 files changed, 12 insertions(+), 4 deletions(-)

diff --git a/anndata/_core/file_backing.py b/anndata/_core/file_backing.py
index 1b4833af5..39a2e9709 100644
--- a/anndata/_core/file_backing.py
+++ b/anndata/_core/file_backing.py
@@ -66,9 +66,13 @@ def filename(self) -> Path:
 
     @filename.setter
     def filename(self, filename: PathLike | None):
-        self._filename = None if filename is None \
-            else filename if isinstance(filename, remfile.RemFile.RemFile) \
+        self._filename = (
+            None
+            if filename is None
+            else filename
+            if isinstance(filename, remfile.RemFile.RemFile)
             else Path(filename)
+        )
 
     def open(
         self,
diff --git a/anndata/tests/test_readwrite.py b/anndata/tests/test_readwrite.py
index a1f2cdea2..f1e4c83b6 100644
--- a/anndata/tests/test_readwrite.py
+++ b/anndata/tests/test_readwrite.py
@@ -799,13 +799,17 @@ def test_io_dtype(tmp_path, diskfmt, dtype):
     assert curr.X.dtype == dtype
 
 
-needs_remfile = pytest.mark.skipif(not find_spec("remfile"), reason="remfile is not installed")
+needs_remfile = pytest.mark.skipif(
+    not find_spec("remfile"), reason="remfile is not installed"
+)
+
 
 @needs_remfile
 def test_read_s3_remfile():
     import remfile
+
     # TODO: change to a different datafile?
     url_had = "https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/expression_matrices/WMB-10Xv2/20230630/WMB-10Xv2-TH-log2.h5ad"
     file_had = remfile.File(url_had)
-    data = ad.read_h5ad(file_had, backed='r')
+    data = ad.read_h5ad(file_had, backed="r")
     assert data.X.shape == (131212, 32285)