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October 6, 2014 13:37
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Amber/Coco workflow on ARCHER - STDERR of the failed compute unit
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| ardi@eslogin003:/work/e290/e290/ardi/radical.pilot.sandbox/pilot-5432858754737d534315377b/unit-5432865b54737d5343153785> more STDERR | |
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| File "pycoco.py", line 97, in <module> | |
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| File "pycoco.py", line 97, in <module> | |
| coco_ui(args) | |
| coco_ui(args) | |
| coco_ui(args) | |
| File "pycoco.py", line 48, in coco_ui | |
| File "pycoco.py", line 48, in coco_ui | |
| File "pycoco.py", line 48, in coco_ui | |
| coco_ui(args) | |
| File "pycoco.py", line 48, in coco_ui | |
| coco_ui(args) | |
| File "pycoco.py", line 48, in coco_ui | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| coco_ui(args) | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| File "pycoco.py", line 48, in coco_ui | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| coco_ui(args) | |
| File "pycoco.py", line 48, in coco_ui | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| coco_ui(args) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| File "pycoco.py", line 48, in coco_ui | |
| coco_ui(args) | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "pycoco.py", line 48, in coco_ui | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| coco_ui(args) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| File "pycoco.py", line 48, in coco_ui | |
| coco_ui(args) | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| File "pycoco.py", line 48, in coco_ui | |
| coco_ui(args) | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "pycoco.py", line 48, in coco_ui | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| coco_ui(args) | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| File "pycoco.py", line 48, in coco_ui | |
| coco_ui(args) | |
| File "pycoco.py", line 48, in coco_ui | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| coco_ui(args) | |
| coco_ui(args) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| File "pycoco.py", line 48, in coco_ui | |
| File "pycoco.py", line 48, in coco_ui | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| coco_ui(args) | |
| coco_ui(args) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| File "pycoco.py", line 48, in coco_ui | |
| File "pycoco.py", line 48, in coco_ui | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| coco_ui(args) | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| File "pycoco.py", line 48, in coco_ui | |
| coco_ui(args) | |
| File "pycoco.py", line 48, in coco_ui | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| coco_ui(args) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "pycoco.py", line 48, in coco_ui | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| coco_ui(args) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| File "pycoco.py", line 48, in coco_ui | |
| coco_ui(args) | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| File "pycoco.py", line 48, in coco_ui | |
| coco_ui(args) | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "pycoco.py", line 48, in coco_ui | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| f.append(cofasu.Fasu(dict['topfile'],trj)) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/extasy.coco-0.1-py2.7.egg/extasy/cofasu.py", line 156, in __init__ | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| self.u = mda.Universe(self.topology,self.trajectory,format=self.format) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2691, in __init__ | |
| self.load_new(coordinatefile, **kwargs) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| self.load_new(coordinatefile, **kwargs) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| self.load_new(coordinatefile, **kwargs) | |
| self.load_new(coordinatefile, **kwargs) | |
| self.load_new(coordinatefile, **kwargs) | |
| self.load_new(coordinatefile, **kwargs) | |
| self.load_new(coordinatefile, **kwargs) | |
| self.load_new(coordinatefile, **kwargs) | |
| self.load_new(coordinatefile, **kwargs) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| self.load_new(coordinatefile, **kwargs) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| self.load_new(coordinatefile, **kwargs) | |
| self.load_new(coordinatefile, **kwargs) | |
| self.load_new(coordinatefile, **kwargs) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| self.load_new(coordinatefile, **kwargs) | |
| self.load_new(coordinatefile, **kwargs) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| self.load_new(coordinatefile, **kwargs) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| self.load_new(coordinatefile, **kwargs) | |
| self.load_new(coordinatefile, **kwargs) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| self.load_new(coordinatefile, **kwargs) | |
| self.load_new(coordinatefile, **kwargs) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| self.load_new(coordinatefile, **kwargs) | |
| self.load_new(coordinatefile, **kwargs) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| self.load_new(coordinatefile, **kwargs) | |
| self.load_new(coordinatefile, **kwargs) | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/core/AtomGroup.py", line 2846, in load_new | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trajectory = TRJReader(filename, **kwargs) # unified trajectory API | |
| File "/work/y07/y07/cse/coco/coco/lib/python2.7/site-packages/MDAnalysis-0.8.1-py2.7-linux-x86_64.egg/MDAnalysis/coordinates/TRJ.py", line 531, in __init__ | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| self.trjfile = netcdf.Dataset(self.filename) | |
| File "netCDF4.pyx", line 1466, in netCDF4.Dataset.__init__ (netCDF4.c:19738) | |
| RuntimeErrorRuntimeError: RuntimeErrorRuntimeErrorRuntimeError: : : NetCDF: Unknown file formatNetCDF: Unknown file formatNetCDF: Unknown file formatRuntimeErrorRuntimeErrorRuntimeErrorRuntimeError | |
| RuntimeErrorRuntimeErrorRuntimeErrorRuntimeError: RuntimeErrorRuntimeError: : : : NetCDF: Unknown file format | |
| NetCDF: Unknown file formatNetCDF: Unknown file format | |
| RuntimeErrorRuntimeError: NetCDF: Unknown file format: NetCDF: Unknown file format | |
| NetCDF: Unknown file format | |
| RuntimeErrorRuntimeError: RuntimeError: NetCDF: Unknown file format: NetCDF: Unknown file format | |
| NetCDF: Unknown file format: | |
| RuntimeErrorNetCDF: Unknown file format: : | |
| RuntimeErrorNetCDF: Unknown file formatNetCDF: Unknown file format | |
| : RuntimeErrorNetCDF: Unknown file format | |
| : : | |
| NetCDF: Unknown file format: | |
| RuntimeErrorNetCDF: Unknown file format: | |
| NetCDF: Unknown file formatNetCDF: Unknown file format | |
| : : NetCDF: Unknown file formatNetCDF: Unknown file format | |
| NetCDF: Unknown file format | |
| NetCDF: Unknown file format | |
| Exception AttributeError: Exception AttributeError": 'NC"D'FNRCeDaFdReera'd eorb'j eocbtj ehcats hnaos antot raitbturtException ieb AttributeError'ut: trej f"i'l'Net'rCj"D in fFiException RleAttributeErrore: | |
| ignored | |
| a'""d in e'rN'C DoF ignored | |
| bRjeeException Exception Exception AttributeErrorAttributeErrorException AttributeError: : : AttributeError"Exception : AttributeError'Exception N: Exception CAttributeErrorException D"AttributeError: ': F"R'e" | |
| NNAttributeError'a: CdException CNDAttributeErrorDFeR: CrD""e''Exception Exception ' NAttributeErrorCAttributeErroraoFDNRCeFF: : RException DbAttributeErrord: eaF"Re"eaa'rjddeN'ce tdeCreo'D FrR ehr''abaj ooesEx | |
| ception db ejAttributeErrorre: cn'o"t' NhCaDsF Rneoa daetrt'r iobbujteec t' thrajsf inloe 'a"t in tException r ignored | |
| AttributeErrori: b"uException 'tNAttributeErrorCe: D F"R'eN'aCdtDeFrRre'j aodbefjrei'c tol bhjaese 'cnto ha"tat in rsi bnuot e ignored | |
| a'tttarrdijebfrui'lte 'e" o in 'btException jre ignored | |
| AttributeErrorj: cfcitt" l' NheahC'Da"F in sRs e ignored | |
| nnooa d aaetrt't torbijbeurtiebcu t' tthreajs f i'lntero' ja"tft in riilbeu't"e ignored | |
| in 't"r ignored | |
| 'jNfilCDFe'"Rea in de"r''N ignored | |
| CoDFRbeadjecet hra's onboj eacttt rhiabsu ten o' tartjtfriilbeu't"e in 'trException j ignored | |
| AttributeError: f"ile''N"CException in DAttributeErrorF: Rea ignored | |
| d"er'' "NoC'bNDjFeCcRDetF aRdeheaardse 'nr o' oaotbtbjreijbcutt ehcates h'atnsor anjot ftaitrltieb'r"i in ubtuet ignored | |
| e' t'rtjrfijRflieleae'd'"e" in in rException ' ignored | |
| AttributeError ignored | |
| : o"bje'NCct DhFaRse andoe r''a NotCtbDjrFieRcebatu tdeehr a's 'otb"r j'jneNof CcialtDtFb Rtjeera'h"deiacb in ecruts t'eh to nb aosj enc 'ahttrajtof is tlarthite 'ar"nsibbo in n ou ignored | |
| auatttet er t''ttirbtjurrtfiijebf iu'tlete l'rt'j"fei in lre''j"" ignored | |
| in in foibl ignored | |
| ignored | |
| ej'ect" in h as ano at ignored | |
| tttribributute e' t'rt jrfoibljefj'eic"l in te 'h"a ignored | |
| s in no attr ignored | |
| ignored | |
| ej'ect" in h as ano at ignored | |
| tttribributute e' t'rt jrfoibljefj'eic"l in te 'h"a ignored | |
| s in no attr ignored | |
| ibute 'trjfile'" in Exception ignored | |
| ignored | |
| AttributeError: "'NCDFReader' object has no attribute 'trjfile'" in ignored |
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Hi Ardita, if you do a
module liston Archer, what do you see?