toil 0 -> 1
attrpath: toil
Checking auto update branch...
[version] 
[version] skipping because derivation has updateScript
[rustCrateVersion] 
[rustCrateVersion] No cargoSha256 or cargoHash found
[golangModuleVersion] 
[golangModuleVersion] Not a buildGoModule package with vendorSha256 or vendorHash
[updateScript] 
[updateScript] Success
[updateScript] 
Going to be running update for following packages:
 - toil-5.7.1

Press Enter key to continue...
Running update for:
 - toil-5.7.1: UPDATING ...
 - toil-5.7.1: DONE.

Packages updated!


[quotedUrls]
[quotedUrls] nothing found to replace
Diff after rewrites:
diff --git a/pkgs/applications/science/misc/toil/default.nix b/pkgs/applications/science/misc/toil/default.nix
index 7fc070f4f9f..d3a09d5ed60 100644
--- a/pkgs/applications/science/misc/toil/default.nix
+++ b/pkgs/applications/science/misc/toil/default.nix
@@ -6,14 +6,14 @@
 
 python3.pkgs.buildPythonApplication rec {
   pname = "toil";
-  version = "5.7.1";
+  version = "5.9.2";
   format = "setuptools";
 
   src = fetchFromGitHub {
     owner = "DataBiosphere";
     repo = pname;
     rev = "refs/tags/releases/${version}";
-    hash = "sha256-m+XvNyzd0ly2YqKhgxezgGaCXLs3CmupJMnp5RIZqNI=";
+    hash = "sha256-toNs1kRkPhL9Bx32rpgzECokmZlV9XNsjcQKSB2T+YI=";
   };
 
   postPatch = ''

No auto update branch exists
Received ExitFailure 1 when running
Raw command: /nix/store/3nqhcyc7vid1npgcd0m7arg5sn325nhz-nix-2.12.0/bin/nix-build --option sandbox true --arg config "{ allowBroken = true; allowUnfree = true; allowAliases = false; }" --arg overlays "[ ]" -A toil
nix build failed.

../../nix/store/v9qczq3z12j33pnkzdfmpv7mq6zw9yvm-python3.10-setuptools-65.6.3/lib/python3.10/site-packages/_distutils_hack/__init__.py:33
  /nix/store/v9qczq3z12j33pnkzdfmpv7mq6zw9yvm-python3.10-setuptools-65.6.3/lib/python3.10/site-packages/_distutils_hack/__init__.py:33: UserWarning: Setuptools is replacing distutils.
    warnings.warn("Setuptools is replacing distutils.")

src/toil/test/provisioners/gceProvisionerTest.py:178
  /build/source/src/toil/test/provisioners/gceProvisionerTest.py:178: PytestUnknownMarkWarning: Unknown pytest.mark.timeout - is this a typo?  You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
    @pytest.mark.timeout(1600)

src/toil/test/provisioners/gceProvisionerTest.py:229
  /build/source/src/toil/test/provisioners/gceProvisionerTest.py:229: PytestUnknownMarkWarning: Unknown pytest.mark.timeout - is this a typo?  You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
    @pytest.mark.timeout(1600)

src/toil/test/provisioners/gceProvisionerTest.py:266
  /build/source/src/toil/test/provisioners/gceProvisionerTest.py:266: PytestUnknownMarkWarning: Unknown pytest.mark.timeout - is this a typo?  You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
    @pytest.mark.timeout(1800)

src/toil/test/provisioners/gceProvisionerTest.py:302
  /build/source/src/toil/test/provisioners/gceProvisionerTest.py:302: PytestUnknownMarkWarning: Unknown pytest.mark.timeout - is this a typo?  You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
    @pytest.mark.timeout(1800)

-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
=========================== short test summary info ============================
ERROR src/toil/test/cwl/cwlTest.py - ModuleNotFoundError: No module named 'mypy_boto3_iam'
ERROR src/toil/test/cwl/cwlTest.py
ERROR src/toil/test/lib/aws/test_iam.py - ModuleNotFoundError: No module named 'mypy_boto3_iam'
ERROR src/toil/test/lib/aws/test_iam.py
!!!!!!!!!!!!!!!!!!! Interrupted: 4 errors during collection !!!!!!!!!!!!!!!!!!!!
================= 16 deselected, 8 warnings, 4 errors in 1.37s =================
/nix/store/b09v23lirgvci3wzszh22mbkdfj0h0yq-stdenv-linux/setup: line 1582: pop_var_context: head of shell_variables not a function context