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Hello, I have a problem with MODELLER8v2. Traceback (most recent call last): File "TASSERvsGPR43.py", line 15, in ? a.make() File
"M:\People\LPetain\Modeller8v2\modlib\modeller\automodel\loopmodel.py",
l ine 28, in make automodel.make(self, exit_stage) File
"M:\People\LPetain\Modeller8v2\modlib\modeller\automodel\automodel.py",
l ine 100, in make self.homcsr(exit_stage) File
"M:\People\LPetain\Modeller8v2\modlib\modeller\automodel\automodel.py",
l ine 318, in homcsr aln = self.read_alignment() File
"M:\People\LPetain\Modeller8v2\modlib\modeller\automodel\automodel.py",
l ine 312, in read_alignment aln.append(file=self.alnfile,
align_codes=self.knowns+[self.sequence]) File
"M:\People\LPetain\Modeller8v2\modlib\modeller\alignment.py", line
36, in append return self.__int_append('alignment.append', io, libs,
vars) File
"M:\People\LPetain\Modeller8v2\modlib\modeller\alignment.py", line
68, in __int_append libs=libs.modpt, **vars) File "M:\People\LPetain\Modeller8v2\modlib\modeller\util\top.py",
line 33, in read_alignment return _modeller.read_alignment(aln, io, libs, *args) _modeller.error: read_al_373E> Protein
specified in ALIGN_CODES(i) was not found in the alignment file; ALIGN_CODES(
1) = tasser I have seen in the same problem in the problem list (http://salilab.org/archives/modeller_usage/2006/msg00162.html) But I don’t understand this problem since my script is:
from modeller.automodel import * log.verbose() env=environ() class myloop(loopmodel): def select_loop_atoms(self):
self.pick_atoms(selection_segment=('145:','173:'),selection_status='INITIALIZE') a=myloop(env,alnfile='TASSER_GPR43.ali',knowns='tasser',
sequence='GPR43') a.starting_model=1 a.ending_model=1 a.md_level=None a.loop.strating_model=1 a.loop.ending_model=5 a.loop.md_level=refine.fast a.make() and it must be correct. Coulp you please help me? Thanks by advance. Ludovic PETAIN Trainee in Chemoinformatics EUROSCREEN SA Tel +32 71
348 500 Fax +32 71 348 519 Direct +32 71 348 509 This message contains |