Add related cwltool PR to CI

Author: GlassOfWhiskey

.github/workflows/cwltool.yml

@@ -21,10 +21,10 @@ jobs:
 
       - uses: actions/setup-python@v6
         with:
-          python-version: '3.9.x'
+          python-version: '3.10.x'
 
       - name: Setup prerequirements
-        run: pip install "cwltest>=2.3" pytest-xdist "cwltool>=3.1.20240909164951"
+        run: pip install "cwltest>=2.3" pytest-xdist git+https://github.com/common-workflow-language/cwltool.git@refs/pull/2177/head
 
       - name: Copy in cwltool-specific configuration for the cwltest pytest plugin
         run: cp "$(python -c 'from cwltool.tests.util import get_data; print(get_data("tests/cwl-conformance/cwltool-conftest.py"))')" conftest.py

invocation.md

@@ -159,7 +159,9 @@ The exit code of the process is available to expressions in
 If the output directory contains a file named "cwl.output.json", that
 file must be loaded and used as the output object.  In this case, the
 output object should still be type-checked against the `outputs`
-section, but `outputBinding` is ignored.
+section, but `outputBinding` is ignored. If an output name is present
+in the "cwl.output.json" file, but has not been declared in the
+`outputs` section, it is ignored and not propagated to the next steps.
 
 For Files and Directories, if the value of `path` is a relative path
 pattern (does not begin with a slash '/') then it is resolved relative