It looks like you :
1. didn't installed MODELLER correctly
2. didn't source .cshrc after installation
Please, email me a copy of your .cshrc and all input files.
PS. I implore everybody to email all the questions to the modeller_usage
list first, because some other people might have the same problems and
they could help or learn how to solve similar problems when they encounter
On Sat, 27 Apr 2002, [ISO-2022-JP] $BLpLn!!2mM5(J wrote:
> I have vety basic questions about modeller6v0.
> I have installed it in my PC(Linux RedHat 7).
> I tried to run modeller according to manual(Tutorial on using MODELLER for
> comparative modeling).
> I can make sure Atom file,Alignment file, Script file and so on.
> There is a sample script file model-default.top as follows
> # Homology modelling by the MODELLER TOP routine 'model'.
> INCLUDE # Include the
> predefined TOP routines
> SET OUTPUT_CONTROL = 1 1 1 1 1 # uncomment to produce a large log file
> SET ALNFILE = 'alignment.ali' # alignment filename
> SET KNOWNS = '5fd1' # codes of the templates
> SET SEQUENCE = '1fdx' # code of the target
> SET ATOM_FILES_DIRECTORY = './:../atom_files' # directories for input atom
> 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
> According to manual
> "To run MODELLER with the script file model-default.top, execute the
> following command:
> mod model-default"
> So I tried to input mod model-default as follows.
> [email@example.com] # mod model-default
> But,the answer is no directory.
> I can't run modeller .I tried other command too.
> Maybe, I don't understand very basci method.
> What should I do to run modeller?