Should you encounter any unexpected behaviour,
please let us know.
elNémo has been hacked on november 27th.
It has been moved away and runs again.
**Still some additional cleaning from time to time**
Sorry for the inconvenience.

STDOUT:

CUTOFF set to default value (CUTOFF=8)
Build Tirion matrix:
 Pdbmat> Computes the Hessian matrix, using an Elastic Network Model.
 Pdbmat> Version 3.50, Fevrier 2004.    

 Pdbmat> Options to be read in pdbmat.dat file.

 Pdbmat> Coordinate filename     = 2603241806131489201.atom

 Pdbmat> Distance cutoff         =       8.00
         Force constant          =      10.00
         Origin of mass values   =       CONS
 Pdbmat> Levelshift              =    1.0E-09
         PRINTing level          =          2

 Pdbmat> Coordinate file 2603241806131489201.atom to be opened.

 Openam> File opened: 2603241806131489201.atom

 Pdbmat> Coordinate file in PDB format.

 Rdatompdb> Reading pdb file.
 Rdatompdb> End of file reached.
 Rdatompdb> Number of I/O errors:      0

 Rdatompdb> Number of residues found =    652
            First residue number     =    145
            Last  residue number     =    133
            Number of atoms found    =   9922
            Mean number per residue  =     15.2

 Pdbmat> Coordinate statistics: 
 =   -19.424305 +/-    22.678556 From:   -68.672000 To:    30.193000
 =   -46.136654 +/-    10.563875 From:   -69.954000 To:   -20.922000
 =    24.706860 +/-    15.077295 From:    -7.887000 To:    58.590000
 Pdbmat> Masses are all set to one.

 Openam> File opened: pdbmat.xyzm
 Pdbmat> Coordinates and masses considered are saved.

 Openam> File opened: pdbmat.sdijb

%Pdbmat-Er> Too small distance =  0.000     between following atoms.
   166: SER    155 H    and    167: SER    155 H   
%Pdbmat-Er> Too small distance =  0.000     between following atoms.

 ***   pdbmat failed for the reason given above     **** 
 ***   please check your input file and parameters  **** 
 ***   (are there two atoms at the same position?   **** 
 ***    e.g. alternative conformations )            **** 



STDERR:
STOP *Wrong coordinates*

• K. Suhre & Y.H. Sanejouand, ElNemo: a normal mode web-server for protein movement analysis and the generation of templates for molecular replacement. Nucleic Acids Research, 32, W610-W614, 2004.
• K. Suhre & Y.H. Sanejouand, On the potential of normal mode analysis for solving difficult molecular replacement problems. Acta Cryst. D vol.60, p796-799, 2004 © International Union of Crystallography.