fixed up doctest and started to add pytest framework

Author: tclose

conftest.py

@@ -0,0 +1,14 @@
+import os
+import pytest
+
+# For debugging in IDE's don't catch raised exceptions and let the IDE
+# break at it
+if os.getenv("_PYTEST_RAISE", "0") != "0":
+
+    @pytest.hookimpl(tryfirst=True)
+    def pytest_exception_interact(call):
+        raise call.excinfo.value
+
+    @pytest.hookimpl(tryfirst=True)
+    def pytest_internalerror(excinfo):
+        raise excinfo.value

pydra/tasks/dcm2niix/tests/test_utils.py

@@ -7,6 +7,5 @@ def test_dcm2niix():
     task.inputs.out_dir = "test-data"
     task.inputs.compress = "y"
     assert (
-        task.cmdline
-        == "dcm2niix -o 'test-data' -f 'out_file' -z y 'test-data/test_dicoms'"
+        task.cmdline == "dcm2niix -o test-data -f out_file -z y test-data/test_dicoms"
     )

pydra/tasks/dcm2niix/utils.py

@@ -362,7 +362,7 @@ class Dcm2Niix(ShellCommandTask):
     >>> task.inputs.out_dir = "test-data"
     >>> task.inputs.compress = "y"
     >>> task.cmdline
-    "dcm2niix -o 'test-data' -f 'out_file' -z y 'test-data/test_dicoms'"
+    "dcm2niix -o test-data -f out_file -z y test-data/test_dicoms"
     """
 
     input_spec = Dcm2NiixInputSpec