Should you encounter any unexpected behaviour,
please let us know.
elNémo has been relocated.
**Some 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     = 2605150013472775371.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 2605150013472775371.atom to be opened.

 Openam> File opened: 2605150013472775371.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 =   1070
            First residue number     =      1
            Last  residue number     =     37
            Number of atoms found    =  47192
            Mean number per residue  =     44.1

 Pdbmat> Coordinate statistics: 
 =    -0.292808 +/-    29.980380 From:   -59.031000 To:    57.192000
 =    -0.354266 +/-    30.199795 From:   -63.607000 To:    60.969000
 =    -5.942141 +/-    14.244123 From:   -63.998000 To:    56.248000
 Pdbmat> Masses are all set to one.
%Pdbmat-W> residue:'HSD ' is not a well known amino-acid.
%Pdbmat-W> residue:'HSD ' is not a well known amino-acid.
%Pdbmat-W> residue:'HSD ' is not a well known amino-acid.
%Pdbmat-W> residue:'HSD ' is not a well known amino-acid.
%Pdbmat-W> residue:'HSD ' is not a well known amino-acid.
%Pdbmat-W> residue:'HSD ' is not a well known amino-acid.
%Pdbmat-W> residue:'HSD ' is not a well known amino-acid.
%Pdbmat-W> residue:'HSD ' is not a well known amino-acid.
%Pdbmat-W> residue:'DOPE' is not a well known amino-acid.
%Pdbmat-W> ........

%Pdbmat-W>    462 residue(s) not known.

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

 Openam> File opened: pdbmat.sdijb

 Pdbmat> Matrix statistics:

 Pdbmat> The matrix is  -5.3019 % Filled.
 Pdbmat>     37933273  non-zero elements.
 Pdbmat>      4184044 atom-atom interactions.

 Pdbmat> Number per atom=    177.32 +/-     50.01
         Maximum number =    252
         Minimum number =      0

 Pdbmat> Matrix trace   = 8.368088E+07
 Pdbmat> Larger element =  917.701    
 Pdbmat>      0 elements larger than +/-  1.0E+10

 Pdbmat> Normal end.
automatic determination of NRBL (NRBL = nresidues/200 + 1)
1070 non-zero elements, NRBL set to 6
Diagonalize Tirion matrix using diagrtb
 Diagrtb> Diagonalizes a matrix, using the RTB/BNM approximation.
 Diagrtb> Version 2.52, November 2004. 
 Diagrtb> Options to be read in diagrtb.dat file.

 Diagrtb> Options taken into account:

 MATRix filename          = pdbmat.sdijb
 COORdinates filename     = 2605150013472775371.atom
 Eigenvector OUTPut file  = matrix.eigenrtb
 Nb of VECTors required   =        106
 EigeNVALues chosen       =       LOWE
 Type of SUBStructuring   =       NONE
 Nb of residues per BLOck =          6
 Origin of MASS values    =       CONS
 MATRix FORMat            =       BINA
 Temporary files cleaning =       ALL 
 Output PRINting level    =          2

 Diagrtb> Memory allocation for Blocpdb.

 Blocpdb> Entering in.

 Openam> file on opening on unit     10:
 diagrtb_work.xyzm   

 Blocpdb> Coordinate file 2605150013472775371.atom to be opened.

 Openam> file on opening on unit     11:
 2605150013472775371.atom                                                                                                        

 Blocpdb> Coordinate file in PDB format.



STDERR:
At line 887 of file diagrtb.f
Fortran runtime error: Bad value during integer read

Error termination. Backtrace:
#0  0x77d30c228e16 in ???
#1  0x77d30c229aa1 in ???
#2  0x77d30c4f7637 in ???
#3  0x77d30c4fce09 in ???
#4  0x77d30c4fe211 in ???
#5  0x62fa51375c97 in blocpdb_
#6  0x62fa5137f7f2 in MAIN__
#7  0x62fa51380fad in main

real	0m0.216s
user	0m0.195s
sys	0m0.020s

• 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.