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Problem to modeller



What is a problem??
i need help...


                         MODELLER 6v2, 17 Feb 2002

     PROTEIN STRUCTURE MODELLING BY SATISFACTION OF SPATIAL RESTRAINTS


                     Copyright(c) 1989-2002 Andrej Sali
                            All Rights Reserved

                            Written by A. Sali
          with help from A. Fiser, R. Sanchez, M.A. Marti-Renom,
                   B. Jerkovic, A. Badretdinov, F. Melo,
                       J.P. Overington & E. Feyfant
                   Rockefeller University, New York, USA
                     Harvard University, Cambridge, USA
                 Imperial Cancer Research Fund, London, UK
             Birkbeck College, University of London, London, UK


Kind, OS, HostName, Kernel, Processor: 4, Linux bioinf4 2.4.4-4GB i686
Date and time of compilation         : 05/24/2002 09:27:23
Job starting time (YY/MM/DD HH:MM:SS): 2002/10/17  15:00:00.125

TOP_________>   105  705 SET ALNFILE  = '1f4h-so34a0.ali'

TOP_________>   106  706 SET ATOM_FILES_DIRECTORY = '/home/jpalacio/fasta'

TOP_________>   107  707 SET KNOWNS   = '1f4hD'

TOP_________>   108  708 SET SEQUENCE = 'so34a0'

TOP_________>   109  709 SET STARTING_MODEL = 1

TOP_________>   110  710 SET ENDING_MODEL  = 1

TOP_________>   111  711 CALL ROUTINE = 'model'

TOP_________>   112  399 CALL ROUTINE = 'getnames'

TOP_________> 113 509 STRING_IF STRING_ARGUMENTS = MODEL 'undefined', OPERATION; = 'EQ', THEN = 'STRING_OPERATE OPERATION = CONCATENA;
                      TE, STRING_ARGUMENTS = SEQUENCE .ini, RESULT = MODEL'

TOP_________> 114 510 STRING_IF STRING_ARGUMENTS = CSRFILE 'undefined', OPERATI; ON = 'EQ', THEN = 'STRING_OPERATE OPERATION = CONCATE; NATE, STRING_ARGUMENTS = SEQUENCE .rsr, RESULT = CSRFILE;
                      '

TOP_________> 115 511 STRING_OPERATE OPERATION = 'CONCATENATE', ; STRING_ARGUMENTS = SEQUENCE '.sch', RESULT = SCHFILE

TOP_________> 116 512 STRING_OPERATE OPERATION = 'CONCATENATE', ; STRING_ARGUMENTS = SEQUENCE '.mat', RESULT = MATRIX_FI;
                      LE

TOP_________>   117  513 SET ROOT_NAME = SEQUENCE

TOP_________>   118  514 RETURN

TOP_________>   119  400 CALL ROUTINE = 'homcsr'

TOP_________> 120 106 READ_ALIGNMENT FILE = ALNFILE, ALIGN_CODES = KNOWNS SEQUE;
                      NCE


Dynamically allocated memory at amaxseq [B,kB,MB]: 2205269 2153.583 2.103
openf5__224_> Open       11  OLD  SEQUENTIAL  1f4h-so34a0.ali
openf5__224_> Open       13  OLD  SEQUENTIAL  /home/jpalacio/fasta/pdb1f4h.ent
rdpir___270E> Error reading/processing file:  1f4h-so34a0.ali
recover____E> ERROR_STATUS >= STOP_ON_ERROR:        1       1

Dynamically allocated memory at finish [B,kB,MB]: 2205269 2153.583 2.103 Starting time : 2002/10/17 15:00:00.125 Closing time : 2002/10/17 15:00:03.672
Total CPU time [seconds]                                 :       3.36

----------------------
teha align file is:

>P1;1f4hD
structureX:1f4h:   :D:: ::::
ITDSLAVVLQRRDWENPGVTQLNRLAAHPPFASWRNSEEARTDRPSQQLRSLNGEWRFAWFPAPEAVPESWLECDLPEADTVVVPSNWQMHGYDAPIYTNVTYPITVN*
>P1;so34a0
sequence:so34a0:    : :     : ::: 0.00: 0.00
KFNSRAGVLQRGDVENPGVAQLNRLGEHPLFASWRNSEEARTGSPFLQVGSLNGKWDAPCSGALNEGPESWLECDLPEADTVVVPSNWQMHGYDAPIYTNVTYPITVN*


--------------------------

the top file:

# Homology modelling by the MODELLER TOP routine 'model'.

INCLUDE                             # Include the predefined TOP routines

SET OUTPUT_CONTROL = 1 1 1 1 1      # uncomment to produce a large log file
SET ALNFILE  = '1f4h-so34a0.ali'      # alignment filename
SET ATOM_FILES_DIRECTORY = '/home/jpalacio/fasta'
SET KNOWNS   = '1f4hD'               # codes of the templates
SET SEQUENCE = 'so34a0'               # code of the target
SET STARTING_MODEL= 1               # index of the first model
SET ENDING_MODEL  = 1               # index of the last model
# (determines how many models to calculate)

CALL ROUTINE = 'model'              # do homology modelling

----------------------------