Hi All,
I am presently trying to run MALIGN for 15 sequences, taking them from their respective PDB co-ordinates. With upto 5 sequences (taken at random)the multiple alignment is working all right, but it is failing for 6 or more inputs. Here is the .log file "................... openf5___> file does not exist: /disk2/pdb/pdb.ent/List.ent (do not worry about this one) rdpir___E> increase MAXSEQ openf5__E> error openning file rdpir___E> alignment sequence not found in PDB file: 1 ./ ............................"
I've tried several Gap Penalty combinations. Please help me as I'm not sure where the mistake is.
Debashis. ------------------------------------------------------------------------------ ("`-''-/").___..--''"`-._ `6_ 6 ) `-. ( ).`-.__.`) Debashis Mukhopadhyay (_Y_.)' ._ ) `._ `. ``-..-' Research Fellow,C&MB Div., _..`--'_..-_/ /--'_.' ,' Saha Institute Of Nuclear Physics, (il).-'' (li).' ((!.-' 1/AF, Bidhannagar,Calcutta-700 064. India. deb@cmb2.saha.ernet.in ------------------------------------------------------------------------------