[scipion-users] Error during particle extraction after Localized reconstruction job

[Karim R. <kar...@um...>]

Dear all,


I'm trying to perform a localized reconstruction on a sub-particle of my structure. I used the "compute sub-particles" job in scipion-v2.0 to generate the coordinates of the sub-particles, however when I want to extract them with relion-extract I get the following error message:


"   Traceback (most recent call last):
00011:     File "/usr/local/bin/scipion/pyworkflow/protocol/protocol.py", line 186, in run
00012:       self._run()
00013:     File "/usr/local/bin/scipion/pyworkflow/protocol/protocol.py", line 1283, in _run
00014:       self._insertAllSteps()  # Define steps for execute later
00015:     File "/usr/local/bin/scipion/pyworkflow/em/protocol/protocol_particles.py", line 171, in _insertAllSteps
00016:       micDict = self._loadInputList()
00017:     File "/usr/local/bin/scipion/pyworkflow/em/protocol/protocol_particles.py", line 359, in _loadInputList
00018:       micDict, self.micsClosed = _loadMics(coordMics)
00019:     File "/usr/local/bin/scipion/pyworkflow/em/protocol/protocol_particles.py", line 350, in _loadMics
00020:       lambda mic: mic.getMicName())
00021:     File "/usr/local/bin/scipion/pyworkflow/em/protocol/protocol_particles.py", line 340, in _loadSet
00022:       micKey = getKeyFunc(item)
00023:     File "/usr/local/bin/scipion/pyworkflow/em/protocol/protocol_particles.py", line 350, in <lambda>
00024:       lambda mic: mic.getMicName())
00025:   AttributeError: 'Particle' object has no attribute 'getMicName'
00026:   ------------------- PROTOCOL FAILED (DONE 0/0)"


I get the same error, when wanting to extract the particles with xmipp. Is this a bug or am I doing something wrong?


Any help would be greatly appreciated.


Best wishes,

Karim
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Karim Rafie; PhD, AMRSC
Postdoctoral Research Fellow
Carlson Lab
Department of Medical Biochemistry and Biophysics
Umeå University
Umeå / Sweden