I try to build a model with my own intial model, but it failed, here is the log file:
Traceback (most recent call last): File "single.py", line 36, in ? a.make() File "/usr/lib64/python2.4/site-packages/modeller/automodel/automodel.py", line 98, in make self.homcsr(exit_stage) File "/usr/lib64/python2.4/site-packages/modeller/automodel/automodel.py", line 427, in homcsr self.make_initial_model(aln) File "/usr/lib64/python2.4/site-packages/modeller/automodel/automodel.py", line 441, in make_initial_model self.generate_method(self, aln) File "/usr/lib64/python2.4/site-packages/modeller/automodel/generate.py", line 46, in read_xyz mdl.transfer_xyz(a, cluster_cut=-1.0) File "/usr/lib64/python2.4/site-packages/modeller/model.py", line 200, in transfer_xyz cluster_method) _modeller.ModellerError: rdpdb___303E> No atoms were read from the specified input PDB file, since the starting residue number and/or chain id in MODEL_SEGMENT (or the alignment file header) was not found; requested starting position: residue number " ", chain " "; atom file name: loop.pdb