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Was working, but now it isn't #261

Closed GoogleCodeExporter closed 9 years ago

GoogleCodeExporter commented 9 years ago 
I'm going through and reprocessing entries that had still needed work. At one 
point, we were able to process 2ktn all the way through, though it had some 
nomenclature issues. I reprocessed this with preset settings and FC crashed. I 
went back and took out the settings, but FC still crashed. 

This is the result. I also put the file in the attachment, since that might be 
easier to read:

Traceback (most recent call last):
  File "/raid/docr/workspace/recoord/python/recoord2/pdbe/linkNmrStarData.py", line 753, in <module>
    LinkNmrStarData(sys.argv)
  File "/raid/docr/workspace/ccpn/python/pdbe/adatah/Generic.py", line 88, in __init__
    self.catchError(raiseError,timeFlag)
  File "/raid/docr/workspace/ccpn/python/pdbe/adatah/Generic.py", line 81, in __init__
    self.runSpecific()
  File "/raid/docr/workspace/recoord/python/recoord2/pdbe/linkNmrStarData.py", line 169, in runSpecific
    self.readNmrStarFile(inNmrStarFile, version = self.originalNmrStarVersion, maxNum = self.numModelsToRead, autoCreateChemComps = True)
  File "/raid/docr/workspace/ccpn/python/pdbe/adatah/NmrStar.py", line 46, in readNmrStarFile
    **localKeywds)
  File "/raid/docr/workspace/ccpn/python/ccpnmr/format/converters/DataFormat.py", line 951, in readProject
    self.getFullProject(fileName,**keywds)
  File "/raid/docr/workspace/ccpn/python/ccpnmr/format/converters/NmrStarFormat.py", line 566, in getFullProject
    chains = self.readSequence(molSystem = molSystem, minimalPrompts = self.minimalPrompts, version = self.version, **localKeywds)
  File "/raid/docr/workspace/ccpn/python/ccpnmr/format/converters/DataFormat.py", line 1071, in readSequence
    (createMoleculeDict,molSystemBonds) = self.checkMolecules()
  File "/raid/docr/workspace/ccpn/python/ccpnmr/format/converters/DataFormat.py", line 6035, in checkMolecules
    self.makeChemComp()
  File "/raid/docr/workspace/ccpn/python/ccpnmr/format/converters/DataFormat.py", line 14320, in makeChemComp
    raise self.FormatConverterError, "  Error: no link code %s, %s" % (linkCode,descriptor)
ccpnmr.format.converters.DataFormat.FormatConverterError: '  Error: no link 
code prev, neutral'

Original issue reported on code.google.com by schulte....@gmail.com on 3 Sep 2010 at 3:34

Attachments:

GoogleCodeExporter commented 9 years ago 
2ktn works now (again). Probably fixed by Wim's contribution.

Original comment by jurge...@gmail.com on 22 Sep 2010 at 6:40