Merge pull request #79 from jayvdb/more-tests

Add more tests

.github/workflows/build.yml

@@ -35,10 +35,10 @@ jobs:
         pip install -e .
     - name: Install pytest
       run: |
-        mamba install -c conda-forge black pyflakes pytest
+        mamba install -c conda-forge black pyflakes pytest-cov
     - name: Test with pytest
       run: |
-        pytest
+        pytest --cov=jgo --cov-report=term-missing --cov-fail-under=90
     - name: Lint with pyflakes and black
       shell: bash
       run: |

jgo/jgo.py

@@ -398,7 +398,6 @@ def _jgo_main(argv=sys.argv[1:], stdout=None, stderr=None):
         completed_process.check_returncode()
 
     except HelpRequested:
-        pass
         parser.print_help()
 
     except NoEndpointProvided:
@@ -508,7 +507,10 @@ def workspace_dir_from_coordinates(coordinates, cache_dir):
     return workspace
 
 
-def workspace_dir_from_endpoint_strings(endpoint_strings, cache_dir, shortcuts={}):
+def workspace_dir_from_endpoint_strings(
+    endpoint_strings, cache_dir, shortcuts={}
+):  # pragma: no cover
+    """Unused"""
     if isinstance(endpoint_strings, str):
         return workspace_dir_from_endpoint_strings(
             split_endpoint_string(endpoint_strings)
@@ -769,7 +771,20 @@ def run(parser, argv=sys.argv[1:], stdout=None, stderr=None):
         verbose=args.verbose,
         link_type=link_type,
     )
+    return _run(
+        workspace,
+        primary_endpoint,
+        jvm_args,
+        program_args,
+        args.additional_jars,
+        stdout,
+        stderr,
+    )
+
 
+def _run(
+    workspace, primary_endpoint, jvm_args, program_args, additional_jars, stdout, stderr
+):
     main_class_file = (
         os.path.join(workspace, primary_endpoint.main_class)
         if primary_endpoint.main_class
@@ -783,7 +798,7 @@ def run(parser, argv=sys.argv[1:], stdout=None, stderr=None):
             jvm_args,
             main_class,
             *program_args,
-            additional_jars=args.additional_jars,
+            additional_jars=additional_jars,
             stdout=stdout,
             stderr=stderr,
             check=False,
@@ -826,7 +841,7 @@ def run(parser, argv=sys.argv[1:], stdout=None, stderr=None):
         jvm_args,
         main_class,
         *program_args,
-        additional_jars=args.additional_jars,
+        additional_jars=additional_jars,
         stdout=stdout,
         stderr=stderr,
         check=False,

jgo/util.py

@@ -10,7 +10,7 @@ def add_jvm_args_as_necessary(argv, gc_option="-XX:+UseConcMarkSweepGC"):
     Extend existing ``argv`` with reasonable default values for garbage collection and max heap size.
     If ``-Xmx`` is not specified in ``argv``, set max heap size to half the system's memory.
 
-    :param argv: arugment vector
+    :param argv: argument vector
     :param gc_option: Use this garbage collector settings, if any.
     :return: ``argv`` with
     """
@@ -60,7 +60,7 @@ def main_from_endpoint(
     :param primary_endpoint: The primary endpoint of the Java program you want to run.
     :param repositories: Any maven repository that holds the required jars. Defaults to {'scijava.public': maven_scijava_repository()}.
     :param primary_endpoint_version: Will be appended to ``primary_endpoint`` if it does not evaluate to ``False``
-    :param primary_endpoint_main_class: Will be appended to ``primary_endpoitn`` if it does not evaluate to ``False``.
+    :param primary_endpoint_main_class: Will be appended to ``primary_endpoint`` if it does not evaluate to ``False``.
     :param secondary_endpoints: Any other endpoints that should be added.
     :return: ``None``
     """

tests/test_parsington.py

@@ -22,7 +22,11 @@ def run_parsington(cache_dir, link_type, parsington_args):
     parser = jgo.jgo.jgo_parser()
     argv = (IGNORE_JGORC, LINK_TYPE, link_type, PARSINGTON_ENDPOINT) + parsington_args
     os.environ[jgo.jgo.jgo_cache_dir_environment_variable()] = cache_dir
-    return jgo.jgo.run(parser=parser, argv=argv, stdout=subprocess.PIPE)
+    try:
+        rv = jgo.jgo.run(parser=parser, argv=argv, stdout=subprocess.PIPE)
+    finally:
+        del os.environ[jgo.jgo.jgo_cache_dir_environment_variable()]
+    return rv
 
 
 def resolve_parsington(cache_dir, link_type, m2_repo):