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     = 2607020440531876217.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 2607020440531876217.atom to be opened.

 Openam> File opened: 2607020440531876217.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 =   5308
            First residue number     =      1
            Last  residue number     =   1327
            Number of atoms found    =  40840
            Mean number per residue  =      7.7

 Pdbmat> Coordinate statistics: 
 =   242.320703 +/-    29.633453 From:   166.439000 To:   323.318000
 =   243.037248 +/-    29.789911 From:   160.172000 To:   325.203000
 =   279.313377 +/-    49.297280 From:   154.812000 To:   382.338000
 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> Matrix statistics:

 Pdbmat> The matrix is   1.3808 % Filled.
 Pdbmat>     14680576  non-zero elements.
 Pdbmat>      1604229 atom-atom interactions.

 Pdbmat> Number per atom=     78.56 +/-     24.78
         Maximum number =    132
         Minimum number =      8

 Pdbmat> Matrix trace   = 3.208458E+07
 Pdbmat> Larger element =  520.047    
 Pdbmat>      0 elements larger than +/-  1.0E+10

 Pdbmat> Normal end.
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     = 2607020440531876217.atom
 Eigenvector OUTPut file  = matrix.eigenrtb
 Nb of VECTors required   =        106
 EigeNVALues chosen       =       LOWE
 Type of SUBStructuring   =       NONE
 Nb of residues per BLOck =       1000
 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 2607020440531876217.atom to be opened.

 Openam> file on opening on unit     11:
 2607020440531876217.atom                                                                                                        

 Blocpdb> Coordinate file in PDB format.

 Blocpdb> 40840 atoms picked in pdb file.
 Blocpdb>   All masses set to unity.
 Blocpdb> Coordinate file is rewritten.

 Blocpdb> Substructuring:
 Blocpdb>  1000 residue(s) per block.
 Blocpdb>  5308 residues.
 Blocpdb>  7615 atoms in block      1
 Block first atom:      1
 Blocpdb>  2595 atoms in block      2
 Block first atom:   7616
 Blocpdb>  7615 atoms in block      3
 Block first atom:  10211
 Blocpdb>  2595 atoms in block      4
 Block first atom:  17826
 Blocpdb>  7615 atoms in block      5
 Block first atom:  20421
 Blocpdb>  2595 atoms in block      6
 Block first atom:  28036
 Blocpdb>  7615 atoms in block      7
 Block first atom:  30631
 Blocpdb>  2595 atoms in block      8
 Block first atom:  38245

 Blocpdb>     8 blocks.

 Blocpdb> At most,   7615 atoms in each of them.
 Blocpdb> At least,  2595 atoms in each of them.

 Blocpdb> Normal end of Blocpdb.

 Diagrtb> Memory allocation for Prepmat.
 Diagrtb> Memory allocation for RTB.
 Diagrtb> Memory allocation for Diagstd.

%Diagrtb-Wn>        48 eigenvectors, only, can be determined.
 Diagrtb> Memory allocation for RTB_to_modes.

%Diagrtb-Er> IIWKMX up to:   1043888051 Maximum allowed is LIWORK=      5000000

%Diagrtb-Er> IRWKMX up to:   1045406131 Maximum allowed is LRWORK=     32000000

%Diagrtb-Er> Not enough memory allowed for working arrays. Sorry.
 Lower the number of blocks, the sizes of the largest ones...
 Or recompile DIAGRTB with larger WORKing arrays.



STDERR:
STOP *Working arrays allocation error*

real	0m0.248s
user	0m0.230s
sys	0m0.018s

• 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.