[scipion-users] xmipptomo subtomo projection error

[Lugmayr, W. <w.l...@uk...>]

Dear developers,

I updated all scipion plugins today incl. xmipptomo (from git devel):

When I try to go over the tutorial "Subtomo Averaging Ribosome" I get the following error in the step above:

00001:   Traceback (most recent call last):
00002:     File "/beegfs/cssb/software/em/scipion/3.0/miniconda/envs/scipion3/lib/python3.8/site-packages/pyworkflow/protocol/protocol.py", line 201, in run
00003:       self._run()
00004:     File "/beegfs/cssb/software/em/scipion/3.0/miniconda/envs/scipion3/lib/python3.8/site-packages/pyworkflow/protocol/protocol.py", line 252, in _run
00005:       resultFiles = self._runFunc()
00006:     File "/beegfs/cssb/software/em/scipion/3.0/miniconda/envs/scipion3/lib/python3.8/site-packages/pyworkflow/protocol/protocol.py", line 248, in _runFunc
00007:       return self._func(*self._args)
00008:     File "/beegfs/cssb/software/em/scipion/3.0/miniconda/envs/scipion3/lib/python3.8/site-packages/xmipptomo/protocols/protocol_project_top.py", line 129, in createOutputStep
00009:       coord.setX(subtomo.getCoordinate3D().getX(const.BOTTOM_LEFT_CORNER))
00010:     File "/beegfs/cssb/software/em/scipion/3.0/devel/scipion-em-tomo/tomo/objects.py", line 1002, in getX
00011:       return self._x.get() - self._getOffset(0, originFunction)
00012:     File "/beegfs/cssb/software/em/scipion/3.0/devel/scipion-em-tomo/tomo/objects.py", line 994, in _getOffset
00013:       origin_Scipion = self.getVolumeOrigin()[dim]
00014:     File "/beegfs/cssb/software/em/scipion/3.0/devel/scipion-em-tomo/tomo/objects.py", line 1197, in getVolumeOrigin
00015:       raise Exception("3D coordinate must be referred to a volume to get its origin.")
00016:   Exception: 3D coordinate must be referred to a volume to get its origin.
00017:   Protocol failed: 3D coordinate must be referred to a volume to get its origin.

and:
00005:   PID: 28105
00006:   pyworkflow: 3.0.20
00007:   plugin: xmipptomo
00008:   plugin v: 3.0.8
00009:   currentDir: /xxxxxxxx/Scipion3_Tomo_STA_Ribosome
00010:   workingDir: Runs/000289_XmippProtSubtomoProject
00011:   runMode: Restart
00012:             MPI: 1
00013:         threads: 1
00014:    Starting at step: 1
00015:    Running steps 
00016:   STARTED: projectZStep, step 1, time 2022-06-23 16:24:56.524428
00017:   FINISHED: projectZStep, step 1, time 2022-06-23 16:25:06.754856
00018:   STARTED: createOutputStep, step 2, time 2022-06-23 16:25:06.903145
00019:   Protocol failed: 3D coordinate must be referred to a volume to get its origin.
00020:   FAILED: createOutputStep, step 2, time 2022-06-23 16:25:06.970330
00021:   *** Last status is failed 
00022:   ------------------- PROTOCOL FAILED (DONE 2/2)

Cheers,
Wolfgang