5TTgen_hsvs produces the desired output image, and then an error message appears from the __init__.py file. Not sure why the filetype of the 5TTgen directory is being checked...
Expected behaviour
Since the 5TT image is successfully generated, it would be fed into subsequent nodes
error message
Exception has occurred: FormatMismatchError
Path that matches extension of <class 'fileformats.generic.File'>, "/Users/arkievdsouza/git/t1-pipeline/working-dir/T1_ProcessingPipeline_v1_testing/FivettGen_Hsvs_5f85384fd0f3e0fbe00ce520baf7fd25", is a directory not a file
File "/Users/arkievdsouza/git/fileformats/fileformats/generic/__init__.py", line 64, in fspath
raise FormatMismatchError(
File "/Users/arkievdsouza/git/fileformats/fileformats/core/fileset.py", line 108, in __attrs_post_init__
getattr(self, prop_name)
File "/Users/arkievdsouza/git/pydra/pydra/utils/typing.py", line 329, in coerce_obj
return type_(obj)
^^^^^^^^^^
File "/Users/arkievdsouza/git/pydra/pydra/utils/typing.py", line 247, in coerce_basic
return coerce_obj(obj, pattern)
^^^^^^^^^^^^^^^^^^^^^^^^
File "/Users/arkievdsouza/git/pydra/pydra/utils/typing.py", line 210, in expand_and_coerce
return coerce_basic(obj, pattern)
^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Users/arkievdsouza/git/pydra/pydra/utils/typing.py", line 340, in coerce
return expand_and_coerce(object_, self.pattern)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Users/arkievdsouza/git/pydra/pydra/utils/typing.py", line 197, in __call__
coerced = self.coerce(obj)
^^^^^^^^^^^^^^^^
File "/Users/arkievdsouza/git/pydra/pydra/engine/core.py", line 593, in _collect_outputs
return attr.evolve(output, **self.output_, **other_output)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Users/arkievdsouza/git/pydra/pydra/engine/core.py", line 562, in _run
result.output = self._collect_outputs(output_dir=output_dir)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Users/arkievdsouza/git/pydra/pydra/engine/workers.py", line 146, in exec_serial
return runnable._run(rerun, environment=environment)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Users/arkievdsouza/git/pydra/pydra/engine/workers.py", line 152, in fetch_finished
await asyncio.gather(*futures)
File "/Users/arkievdsouza/git/pydra/pydra/engine/submitter.py", line 251, in expand_workflow
task_futures = await self.worker.fetch_finished(task_futures)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Users/arkievdsouza/git/pydra/pydra/engine/core.py", line 1339, in _run_task
await submitter.expand_workflow(self, rerun=rerun)
File "/Users/arkievdsouza/git/pydra/pydra/engine/core.py", line 1310, in _run
await self._run_task(submitter, rerun=rerun)
File "/Users/arkievdsouza/git/pydra/pydra/engine/submitter.py", line 84, in submit_from_call
await runnable._run(self, rerun=rerun)
File "/Users/arkievdsouza/git/pydra/pydra/engine/submitter.py", line 55, in __call__
self.loop.run_until_complete(
File "/Users/arkievdsouza/git/pydra/pydra/engine/core.py", line 461, in __call__
res = sub(self, environment=environment)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Users/arkievdsouza/git/t1-pipeline/T1_ProcessingPipeline_v1.py", line 347, in <module>
result = wf(
^^^
fileformats.core.exceptions.FormatMismatchError: Path that matches extension of <class 'fileformats.generic.File'>, "/Users/arkievdsouza/git/t1-pipeline/working-dir/T1_ProcessingPipeline_v1_testing/FivettGen_Hsvs_5f85384fd0f3e0fbe00ce520baf7fd25", is a directory not a file
Description
5TTgen_hsvs produces the desired output image, and then an error message appears from the
__init__.pyfile. Not sure why the filetype of the 5TTgen directory is being checked...Expected behaviour
Since the 5TT image is successfully generated, it would be fed into subsequent nodes
error message