After executing "sequence_search" for two hours does not deliver result: The file .top used is the following one: -------------------------------------------------------------------------------------------------------------- INCLUDE SET OUTPUT_CONTROL = 1 1 1 1 1 SET SEARCH_RANDOMIZATIONS = 3 SET FILE = 'TvLDH.ali' SEQUENCE_SEARCH ALIGN_CODES = 'TvLDH', DATA_FILE = ON ----------------------------------------------------------------------------------------------------------------- The used file of sequence is the following one: >P1;TvLDH sequence:TvLDH:::::::0.00: 0.00 MSEAAHVLITGAAGQIGYILSHWIASGELYG-DRQVYLHLLDIPPAMNRLTALTMELEDCAFPHLAGFVATTDPK AAFKDIDCAFLVASMPLKPGQVRADLISSNSVIFKNTGEYLSKWAKPSVKVLVIGNPDNTNCEIAMLHAKNLKPE NFSSLSMLDQNRAYYEVASKLGVDVKDVHDIIVWGNHGESMVADLTQATFTKEGKTQKVVDVLDHDYVFDTFFKK IGHRAWDILEHRGFTSAASPTKAAIQHMKAWLFGTAPGEVLSMGIPVPEGNPYGIKPGVVFSFPCNVDKEGKIHV VEGFKVNDWLREKLDFTEKDLFHEKEIALNHLAQGG* -------------------------------------------- The file .log obtained is : ---------------------------------------------------------------------------------------------------------------- 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): 2002/09/23 15:16:01.528 TOP_________> 105 705 SET SEARCH_RANDOMIZATIONS = 3 TOP_________> 106 706 SET FILE = 'TvLDH.ali' TOP_________> 107 707 SEQUENCE_SEARCH ALIGN_CODES = 'TvLDH', DATA_FILE = ON openf5__224_> Open 11 OLD SEQUENTIAL ${MODINSTALL6v2}/modlib//CHAINS_3.0_40_XN.cod Dynamically allocated memory at amaxchn [B,kB,MB]: 2306323 2252.269 2.199 openf5__224_> Open 11 OLD SEQUENTIAL ${MODINSTALL6v2}/modlib//CHAINS_3.0_40_XN.cod openf5__224_> Open 11 OLD SEQUENTIAL ${MODINSTALL6v2}/modlib//CHAINS_all.seq Dynamically allocated memory at amresdb [B,kB,MB]: 5689471 5556.124 5.426 openf5__224_> Open 11 OLD SEQUENTIAL ${MODINSTALL6v2}/modlib//CHAINS_all.seq Dynamically allocated memory at amaxseq [B,kB,MB]: 5877209 5739.462 5.605 Dynamically allocated memory at amaxbnd [B,kB,MB]: 110299725 107714.600 105.190 openf5__224_> Open 11 OLD SEQUENTIAL ${MODINSTALL6v2}/modlib//as1.sim.mat rdrrwgh_268_> Number of residue types: 20 openf5__224_> Open 11 OLD SEQUENTIAL TvLDH.ali --------------------------------------------------------------------------------------------------------------------------------------------------------------- passed the 2 hours it orders the following message: /usr/local/modeller6v2/bin/mod6v2 : line38 : 2030 terminated $NICE ${EXECUTABLE} $STEERF >$LOGF WHAT IS A PROBLEM??? That can do?