Fix pyright errors for requests

nextstrain/cli/pathogens.py

@@ -454,9 +454,11 @@ def setup(self, dry_run: bool = False, force: bool = False) -> SetupStatus:
                 """) from err
 
         except requests.exceptions.HTTPError as err:
+            assert err.response is not None
             if 400 <= err.response.status_code <= 499:
+                auth = err.response.request.headers["Authorization"]
                 if (err.response.status_code in {401, 403}
-                and (auth := err.response.request.headers["Authorization"])
+                and isinstance(auth, str)
                 and auth.startswith("Basic ")):
                     user = b64decode(auth.split(" ", 1)[1]).decode("utf-8").split(":", 1)[0]
 
@@ -536,7 +538,6 @@ def setup(self, dry_run: bool = False, force: bool = False) -> SetupStatus:
                     may be worth waiting a little bit and trying again a few
                     more times.
                     """, urls = request_list(err.response)) from err
-
             else:
                 raise err
 

nextstrain/cli/remote/nextstrain_dot_org.py

@@ -390,8 +390,8 @@ def download(url: URL, local_path: Path, recursively: bool = False, dry_run: boo
                         continue
 
                     # Stream response data to local file
-                    with destination.open("w") as local_file:
-                        for chunk in response.iter_content(chunk_size = None, decode_unicode = True):
+                    with destination.open("wb") as local_file:
+                        for chunk in response.iter_content(chunk_size = None):
                             local_file.write(chunk)
 
 
@@ -824,7 +824,7 @@ def raise_for_status(origin: Origin, response: requests.Response) -> None:
         response.raise_for_status()
 
     except requests.exceptions.HTTPError as err:
-        assert type(err.response) is requests.Response
+        assert err.response is not None
         status = err.response.status_code
 
         if status == 400:
@@ -933,7 +933,7 @@ def raise_for_status(origin: Origin, response: requests.Response) -> None:
             raise
 
 
-def authn_challenge(response: requests.Response) -> Optional[Dict[str, str]]:
+def authn_challenge(response: requests.Response) -> Optional[dict[str, Optional[str]]]:
     """
     Extract the Bearer authentication challenge parameters from the HTTP
     ``WWW-Authenticate`` header of *response*.

nextstrain/cli/requests.py

@@ -87,7 +87,7 @@ def default_user_agent(minimal: bool = USER_AGENT_MINIMAL) -> str:
 
     tty = "yes" if any(os.isatty(fd) for fd in [0, 1, 2]) else "no"
 
-    return f"Nextstrain-CLI/{__version__} (https://nextstrain.org/cli) Python/{py_version} python-requests/{requests.__version__} platform/{system}-{machine} installer/{installer} tty/{tty}"
+    return f"Nextstrain-CLI/{__version__} (https://nextstrain.org/cli) Python/{py_version} python-requests/{requests.__version__} platform/{system}-{machine} installer/{installer} tty/{tty}"  # type: ignore[reportPrivateImportUsage]
 
 
 def version_info_to_str(version_info: Tuple[int, int, int, str, int]) -> str: