I havealigned two sequences and want to modelise one of them. I applied to my file all the previous suggestions evoqued in the archive (SET OUTPUT_CONTROL = 1 1 1 1 1, corrected the format of my PIR alignement). Yet I still get the same error message.

When I try to check my alignement, i also get this message.

Does any body have any idea?

TOP_________>   109 749 SET ALNFILE = 'ali.pir'

TOP_________>   110 750 SET KNOWNS = '1ayx'

TOP_________>   111 751 SET SEQUENCE = 'KPB1'

TOP_________>   112 752 SET STARTING_MODEL = 1

TOP_________>   113 753 SET ENDING_MODEL = 5

TOP_________>   114 754 CALL ROUTINE = 'model'

TOP_________>   115 419 CALL ROUTINE = 'getnames'

TOP_________>   116 534 STRING_IF STRING_ARGUMENTS = MODEL 'undefined', OPERATION;
                       = 'EQ', THEN =     'STRING_OPERATE OPERATION = CONCATENA;
                      TE, STRING_ARGUMENTS = SEQUENCE .ini, RESULT = MODEL'

TOP_________>   117 535 STRING_IF STRING_ARGUMENTS = CSRFILE 'undefined', OPERATI;
                      ON = 'EQ', THEN =     'STRING_OPERATE OPERATION = CONCATE;
                      NATE, STRING_ARGUMENTS = SEQUENCE .rsr, RESULT = CSRFILE;
                      '

TOP_________>   118 536 STRING_OPERATE OPERATION = 'CONCATENATE',                ;
                         STRING_ARGUMENTS = SEQUENCE '.sch', RESULT = SCHFILE

TOP_________>   119 537 STRING_OPERATE OPERATION = 'CONCATENATE',                ;
                        STRING_ARGUMENTS = SEQUENCE '.mat', RESULT = MATRIX_FI;
                      LE

TOP_________>   120 538 SET ROOT_NAME = SEQUENCE

TOP_________>   121 539 RETURN

TOP_________>   122 420 CALL ROUTINE = 'homcsr'

TOP_________>   123 112 READ_ALIGNMENT FILE = ALNFILE, ALIGN_CODES = KNOWNS SEQUE;
                      NCE

Dynamically allocated memory at amaxseq [B,kB,MB]: 84067 82.097 0.080
openf5__224_> Open 20 OLD SEQUENTIAL ali.pir

Dynamically allocated memory at amaxbnd [B,kB,MB]: 8049459 7860.800 7.677
openf5__224_> Open 20 OLD SEQUENTIAL ali.pir

Read the alignment from file : ali.pir
Total number of alignment positions: 500

# Code        #_Res #_Segm PDB_code    Name
-------------------------------------------------------------------------------
1       1ayx     446      1 glucoamlyse
2       KPB1     394      1 alpha subun
TOP_________>   124 113 STRING_IF STRING_ARGUMENTS = TOP_VERSION 'accelrys', OPER;
                      ATION = 'ne', THEN = 'GO_TO __ACCELRYS1'

TOP_________>   125 117 CHECK_ALIGNMENT

check_a_343_> >> BEGINNING OF COMMAND
check_a_337E> Structure not read in:        1
recover____E> ERROR_STATUS >= STOP_ON_ERROR:        1       1