Hi Rathan , The problem lies in your alignment file. Try to verify it with the one given in modeller example. if still cant fix problem. mail your alignment file......without seeing alignment file it's difficult to fix problem,
Yours , B.Nataraj
rathan kar storagerathan@yahoo.co.in wrote: hi all iam a fresher working on modeller and nothing is going on here properly . i use a win me machine with mod6v2 installed. i tried an alignment file to model but its not working .i have included the top files for reference INCLUDE # Include the predefined TOP routines SET OUTPUT_CONTROL = 1 1 1 1 1 # uncomment to produce a large log file SET ALNFILE = 'alignmentfile.ali' # alignment filename SET KNOWNS = '1HM9' # codes of the templates SET SEQUENCE = 'query' # code of the target SET ATOM_FILES_DIRECTORY = 'c:/mod6v2/bin/1hm9.pdb' # directories for input atom files 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
i dont know what does this atom_files mean.plz explain the ERROR it shows is as follows: openf5___224_>open 11 OLD SEQUENTIAL alignmentfile.ali rdpir___376W>not enough fields in the sequence line of the sequence entry:sequence:query:1::165 : : actual fields should be: 7 10 (Fields are separated by a colon. :) read_al_375E>unknown residue type,Position , Sequence: 1 1 recover_____E>ERROR_STATUS=>STOP_ON_ERROR 1 1
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B.Nataraj, Final year M.Tech.(Bioinformatics), SASTRA Deemed University, (www.sastra.edu) Thanjavur, Tamil Nadu, India. Email:nataraj@biotech2.sastra.edu Email:natarajmtech@yahoo.co.uk --------------------------------- Yahoo! Messenger - Communicate instantly..."Ping" your friends today! Download Messenger Now