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
sys_____214E> File probably does not exist. Perhaps you have to increase swap space size. Filename: 1026244802 Command : uname -rnsm > 1026244802 recover____E> ERROR_STATUS >= STOP_ON_ERROR: 1 1
Dynamically allocated memory at finish [B,kB,MB]: 0 0.000 0.000 Starting time : 2002/07/09 16:00:02.767 Closing time : 2002/07/09 16:00:02.892 Total CPU time [seconds] : 0.09
Thanks
Hi, I try to run modeller v 62 and that is the message i get. Do any of you know what might be the problem?
read_al_375E> Unknown residue type,position,sequence: 1 1
>From the remark i understand that i may have included some incorect residues but the alignment i use is as follows:
>P1;fp4636 sequence : fp4636 : 1 : : 214 : : : : : LYIY-DHCPYCLKARMIFG---LKNIPVELHVL-----L--N----D-D-----AETP----T----R----- M--VG---Q---KQVPILQ--KD--DSRYMPESMDIVHYVDKLD---GK----PLL----TG---K----R---- SPAIEEW----LRKVNGYANKLLLPRFAKSAFDEFSTPAARKYFVDKKEASAGNF--ADLLA-HSDG-LI--KNI SDDLRALDK-LIV--KPNAV---NGE-LSEDDIQLFPLLRNLT---L---VA---G-I----NWP---S---RVA DYRDNMAKQTQINLLSSMAI*
>P1;1eem structure : 1eem : 26 : A : 216 : A : : : : IYSM-RFCPFAERTRLVLK---AKGIRHEVINI-----N--L----KNK-----PEWF----F----K----- K--NP---F---GLVPVLE--NS--QGQLIYESAITCEYLDEAYP--GK----KLL----PD---D----P---- YEKACQK----MILELFSKVPSLVGSFIRS-----QNKEDYAGLKEEFRKEFTKL--EEVLT-N----------- -----------KK--TTFFG---GNS-ISMIDYLIWPWFERLE---A---MKLNEC-V----DHT---P---KLK LWMAAMKEDPTVSALL----*
Thanks alot, Iris.
hello,
It is not only the residue type that can cause this problem; if a file was not found i.e. empty input is detected, you see the same problem.
File may not be found if there is a mistake in naming the file in your top or alignment file (watch out for typos, case sensitivity, hidden characters etc.). Or simply the file may not exist in your directory, or you specify a different directory in your top file etc .
Andras
sasson iris wrote: > > Hi, > I try to run modeller v 62 and that is the message i get. > Do any of you know what might be the problem? > > read_al_375E> Unknown residue type,position,sequence: 1 1 > > >From the remark i understand that i may have included some incorect > residues but the alignment i use is as follows: > > >P1;fp4636 > sequence : fp4636 : 1 : : 214 : : : : : > LYIY-DHCPYCLKARMIFG---LKNIPVELHVL-----L--N----D-D-----AETP----T----R----- > M--VG---Q---KQVPILQ--KD--DSRYMPESMDIVHYVDKLD---GK----PLL----TG---K----R---- > SPAIEEW----LRKVNGYANKLLLPRFAKSAFDEFSTPAARKYFVDKKEASAGNF--ADLLA-HSDG-LI--KNI > SDDLRALDK-LIV--KPNAV---NGE-LSEDDIQLFPLLRNLT---L---VA---G-I----NWP---S---RVA > DYRDNMAKQTQINLLSSMAI* > > >P1;1eem > structure : 1eem : 26 : A : 216 : A : : : : > IYSM-RFCPFAERTRLVLK---AKGIRHEVINI-----N--L----KNK-----PEWF----F----K----- > K--NP---F---GLVPVLE--NS--QGQLIYESAITCEYLDEAYP--GK----KLL----PD---D----P---- > YEKACQK----MILELFSKVPSLVGSFIRS-----QNKEDYAGLKEEFRKEFTKL--EEVLT-N----------- > -----------KK--TTFFG---GNS-ISMIDYLIWPWFERLE---A---MKLNEC-V----DHT---P---KLK > LWMAAMKEDPTVSALL----* > > Thanks alot, > Iris.
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fisera -
Juan Palacios -
sasson iris