Open
Description
select
doesn't work on stdout
/stderr
in Windows. We'll need to move to asyncio
, I believe.
Originally posted by @axiezai in #2509 (comment)
I just pointed the dcm2niix example to an empty directory, with the updated installation you suggested:
{'commit_hash': '0dbcedda8',
'commit_source': 'installation',
'networkx_version': '2.5',
'nibabel_version': '3.2.0',
'nipype_version': '1.6.0-dev',
'numpy_version': '1.19.4',
'pkg_path': 'C:\\Users\\Xihe\\anaconda3\\envs\\nipype_test\\lib\\site-packages\\nipype',
'scipy_version': '1.5.4',
'sys_executable': 'C:\\Users\\Xihe\\anaconda3\\envs\\nipype_test\\python.exe',
'sys_platform': 'win32',
'sys_version': '3.8.5 (default, Sep 3 2020, 21:29:08) [MSC v.1916 64 bit '
'(AMD64)]',
'traits_version': '6.1.1'}
Here's the code I used:
from nipype.interfaces.dcm2nii import Dcm2niix
converter = Dcm2niix()
converter.inputs.source_dir = 'C:/Users/Xihe/Documents/nipype_testing/'
converter.inputs.compression = 5
converter.inputs.output_dir = 'C:/Users/Xihe/Documents/nipype_testing/'
converter.run()
The directory has no dicom images so I expect the following msg:
Error: Unable to find any DICOM images in /mnt/c/Users/Xihe/Downloads (or subfolders 5 deep)
Return code: 2
Which is what happens on my ubuntu subsystem on the same windows machine I'm testing on.
But in Windows Anaconda installation I am now getting:
---------------------------------------------------------------------------
OSError Traceback (most recent call last)
<ipython-input-8-e1d471e9c2ab> in <module>
----> 1 converter.run()
~\anaconda3\envs\nipype_test\lib\site-packages\nipype\interfaces\base\core.py in run(self, cwd, ignore_exception, **inputs)
432 try:
433 runtime = self._pre_run_hook(runtime)
--> 434 runtime = self._run_interface(runtime)
435 runtime = self._post_run_hook(runtime)
436 outputs = self.aggregate_outputs(runtime)
~\anaconda3\envs\nipype_test\lib\site-packages\nipype\interfaces\dcm2nii.py in _run_interface(self, runtime)
442 def _run_interface(self, runtime):
443 # may use return code 1 despite conversion
--> 444 runtime = super(Dcm2niix, self)._run_interface(
445 runtime, correct_return_codes=(0, 1,)
446 )
~\anaconda3\envs\nipype_test\lib\site-packages\nipype\interfaces\base\core.py in _run_interface(self, runtime, correct_return_codes)
825 else "<skipped>"
826 )
--> 827 runtime = run_command(runtime, output=self.terminal_output)
828 if runtime.returncode is None or runtime.returncode not in correct_return_codes:
829 self.raise_exception(runtime)
~\anaconda3\envs\nipype_test\lib\site-packages\nipype\utils\subprocess.py in run_command(runtime, output, timeout)
135 while proc.returncode is None:
136 proc.poll()
--> 137 _process()
138
139 _process(drain=1)
~\anaconda3\envs\nipype_test\lib\site-packages\nipype\utils\subprocess.py in _process(drain)
122 def _process(drain=0):
123 try:
--> 124 res = select.select(streams, [], [], timeout)
125 except select.error as e:
126 iflogger.info(e)
OSError: [WinError 10038] An operation was attempted on something that is not a socket
Not sure if this is a separate issue or something weird going on with my old laptop
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