[scipion-users] particle pair extraction issue

[Burcham, R. G <rod...@va...>]

Scipion Development Team:

I have encountered an issue with the "xmipp3 - extract particle pairs" protocol running Scipion as distributed in SBGrid. The full run.stdout log is attached; the relevant output for the failed step is included here:

01337:   STARTED: createOutputStep, step 791
01338:     2017-08-07 10:00:01.087211
01339:   Traceback (most recent call last):
01340:     File "/home/sbgrid/programs/x86_64-linux/scipion/1.1/pyworkflow/protocol/executor.py", line 137, in run
01341:       self.step._run()  # not self.step.run() , to avoid race conditions
01342:     File "/home/sbgrid/programs/x86_64-linux/scipion/1.1/pyworkflow/protocol/protocol.py", line 228, in _run
01343:       resultFiles = self._runFunc()
01344:     File "/home/sbgrid/programs/x86_64-linux/scipion/1.1/pyworkflow/protocol/protocol.py", line 224, in _runFunc
01345:       return self._func(*self._args)
01346:     File "/home/sbgrid/programs/x86_64-linux/scipion/1.1/pyworkflow/em/packages/xmipp3/protocol_extract_particles_pairs.py", line 312, in createOutputStep
01347:       if imgU.isEnabled() and imgT.isEnabled():
01348:   AttributeError: 'NoneType' object has no attribute 'isEnabled'
01349:   Protocol failed: 'NoneType' object has no attribute 'isEnabled'
01350:   FAILED: createOutputStep, step 791
01351:     2017-08-07 10:00:05.257749
01352:   ------------------- PROTOCOL FAILED (DONE 791/791)

Briefly, the protocol successfully performs preprocessing and particle extraction steps for each image, but fails at the final write output step. This protocol was run using Scipion version 1.1, but I have the same problem in version 1.0.1. XMIPP is version 3.2. Please advise as to what configuration or data issues may cause this error to arise.

Thanks,
Rodger Burcham