From c652dedca5deb9c495b2f5c6f0e9301b2ea09a99 Mon Sep 17 00:00:00 2001
From: "dependabot[bot]" <49699333+dependabot[bot]@users.noreply.github.com>
Date: Wed, 26 Jul 2023 04:06:49 +0000
Subject: [PATCH 1/2] Bump mypy from 1.2.0 to 1.4.1

Bumps [mypy](https://github.com/python/mypy) from 1.2.0 to 1.4.1.
- [Commits](https://github.com/python/mypy/compare/v1.2.0...v1.4.1)

---
updated-dependencies:
- dependency-name: mypy
  dependency-type: direct:development
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
---
 requirements-dev.txt | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/requirements-dev.txt b/requirements-dev.txt
index 0e89da9e83..5cd6193c43 100644
--- a/requirements-dev.txt
+++ b/requirements-dev.txt
@@ -9,7 +9,7 @@ sphinx-autoapi
 sphinx-autodoc-typehints
 sphinxcontrib-autoprogram
 cwltest>=2.2.20211116163652
-mypy==1.2.0
+mypy==1.4.1
 types-requests
 types-setuptools
 types-boto

From e50cba93e7e24ee5b63ed1e70ef0bcbb55ef2102 Mon Sep 17 00:00:00 2001
From: "Michael R. Crusoe" <michael.crusoe@gmail.com>
Date: Thu, 27 Jul 2023 11:34:35 +0200
Subject: [PATCH 2/2] fix types

---
 src/toil/lib/accelerators.py | 21 ++++++++++++++++-----
 1 file changed, 16 insertions(+), 5 deletions(-)

diff --git a/src/toil/lib/accelerators.py b/src/toil/lib/accelerators.py
index eab1d7f630..2c7f50c9c2 100644
--- a/src/toil/lib/accelerators.py
+++ b/src/toil/lib/accelerators.py
@@ -16,7 +16,7 @@
 
 import os
 import subprocess
-from typing import Dict, List, Optional, Set, Union
+from typing import Dict, List, Optional, Set, Union, cast
 from xml.dom import minidom
 
 from toil.job import AcceleratorRequirement
@@ -92,10 +92,21 @@ def count_nvidia_gpus() -> int:
     # <https://github.com/common-workflow-language/cwltool/blob/6f29c59fb1b5426ef6f2891605e8fa2d08f1a8da/cwltool/cuda.py>
     # Some example output is here: <https://gist.github.com/loretoparisi/2620b777562c2dfd50d6b618b5f20867>
     try:
-        return int(minidom.parseString(
-            subprocess.check_output(["nvidia-smi", "-q", "-x"])
-        ).getElementsByTagName("attached_gpus")[0].firstChild.data)
-    except (FileNotFoundError, subprocess.CalledProcessError, IndexError, ValueError, PermissionError):
+        return int(
+            cast(
+                minidom.Text,
+                minidom.parseString(subprocess.check_output(["nvidia-smi", "-q", "-x"]))
+                .getElementsByTagName("attached_gpus")[0]
+                .firstChild,
+            ).data
+        )
+    except (
+        FileNotFoundError,
+        subprocess.CalledProcessError,
+        IndexError,
+        ValueError,
+        PermissionError,
+    ):
         return 0
 
     # TODO: Parse each gpu > product_name > text content and convert to some