Re: [scipion-users] xmipp3 - movie extract error

[Yaiza R. <su...@bc...>]

Hi Dmitry,   
 It looks like the protocol is having trouble finding your movies, have they moved or have you moved your project recently? Can you try importing them again and executing this right afterwards? 
   
 Best, 
 
 Yaiza Rancel 
 Scipion Team 
 
 
 
                 
         Activo Dom, 14 Mayo at 12:01 PM
          ,  Dmitry Semchonok <sem...@gm...>  Escrito:
           
 
 
 
 
 Dear colleagues,  
 The protocol xmipp3 - movie extract ends up with the following error   STARTED: processMovieStep, step 1 00012:     2017-05-14 10:42:24.500805 00013:   Processing movie: Runs/028262_XmippProtExtractMovieParticles/tmp/movie_000001/FoilHole_26594250_Data_25564800_25564801_20160826_2007-21923.mrc 00014:   Traceback (most recent call last): 00015:     File "/software/software/Scipion/1.1_2017-02-06-foss-2016a/pyworkflow/protocol/protocol.py", line 182, in run 00016:       self._run() 00017:     File "/software/software/Scipion/1.1_2017-02-06-foss-2016a/pyworkflow/protocol/protocol.py", line 228, in _run 00018:       resultFiles = self._runFunc() 00019:     File "/software/software/Scipion/1.1_2017-02-06-foss-2016a/pyworkflow/protocol/protocol.py", line 224, in _runFunc 00020:       return self._func(*self._args) 00021:     File "/software/software/Scipion/1.1_2017-02-06-foss-2016a/pyworkflow/em/protocol/protocol_movies.py", line 267, in processMovieStep 00022:       self._processMovie(movie) 00023:     File "/software/software/Scipion/1.1_2017-02-06-foss-2016a/pyworkflow/em/packages/xmipp3/protocol_extract_particles_movies.py", line 191, in _processMovie 00024:       x, y, n = movie.getDim() 00025:   TypeError: 'NoneType' object is not iterable 00026:   Protocol failed: 'NoneType' object is not iterable 00027:   FAILED: processMovieStep, step 1 00028:     2017-05-14 10:42:25.035791 00029:   ------------------- PROTOCOL FAILED (DONE 1/5141)   ```````````````````````````````````````````````````````````````````````````````````````````````````````````````````````````````````` 00001:   2017-05-14 10:42:18,291 INFO:  RUNNING PROTOCOL ----------------- 00002:   2017-05-14 10:42:18,292 INFO:            PID: 58347 00003:   2017-05-14 10:42:18,292 INFO:        Scipion: v1.1-beta (2017-04-21) Balbino 00004:   2017-05-14 10:42:18,292 INFO:     currentDir: /scratch/p260888/ScipionUserData/projects/tetra_parts_ 00005:   2017-05-14 10:42:18,293 INFO:     workingDir: Runs/028262_XmippProtExtractMovieParticles 00006:   2017-05-14 10:42:18,293 INFO:        runMode: Restart 00007:   2017-05-14 10:42:18,293 INFO:            MPI: 1 00008:   2017-05-14 10:42:18,293 INFO:        threads: 1 00009:   2017-05-14 10:42:22,697 INFO:   Starting at step: 1 00010:   2017-05-14 10:42:24,443 INFO:   Running steps  00011:   2017-05-14 10:42:24,500 INFO:  STARTED: processMovieStep, step 1 00012:   2017-05-14 10:42:24,501 INFO:    2017-05-14 10:42:24.500805 00013:   2017-05-14 10:42:25,034 INFO:  Processing movie: Runs/028262_XmippProtExtractMovieParticles/tmp/movie_000001/FoilHole_26594250_Data_25564800_25564801_20160826_2007-21923.mrc 00014:   2017-05-14 10:42:25,037 ERROR:  Protocol failed: 'NoneType' object is not iterable 00015:   2017-05-14 10:42:25,126 INFO:  FAILED: processMovieStep, step 1 00016:   2017-05-14 10:42:25,126 INFO:    2017-05-14 10:42:25.035791 00017:   2017-05-14 10:42:25,308 INFO:  ------------------- PROTOCOL FAILED (DONE 1/5141) 00018:   2017-05-14 10:42:29,073 INFO:  ------------------- PROTOCOL FAILED (DONE 1/5141)      
 Any ideas how to fix that?  
 Thank you  
 Sincerely, 
 Dmitry   Scipion v1.1-beta (2017-04-21) Balbino