But is modeller who is generating this file adsl.B99990001.pdb. I couldnt find any parameter to set this file name.
I just need three files: the script file (mod.py), the align file ( align.ali) and the template structure (1c3c.pdb)
The PDB named adsl.B99990001.pdb that modeller cant find is a pdb file
generated by it own. as far as I know, modeller generates the models
using first the sequence name a putting after it the code B99990001.pdb
for the first structure, B99990002.pdb to the second and so on.
Modeller generates initials files, but not this one that he couldnt find.
>Running Modeller8v1 I am getting the following error message: >IOError: openf5__225E> File does not exist: file-not-found >pdbnam__217W> Filename for PDB code not found: adsl.B99990001.pdb
> Directories: ./ > Extensions
: :.atm:.pdb:.ent:.crd >openf5__224_> Open 11 OLD SEQUENTIAL file-not-found >openf5__225E> File does not exist: file-not-found
Does anyone have a suggestion why it is happening !?
You should take about DOS extensions: rename your file for example (adsl_B99990001.pdb), it should be only one ".pdb" extension. Also make attention for the subdirectory you put the PDB file, env.io.atom_files_directory
= './:../atom_files/' Hope this help,
Riadh HAMMAMI UNIVERSITY OF TUNIS EL MANAR, TUNISIA
-- Ricardo de Paula Nicoluci PhD Student Medicinal Chemistry Laboratory
IFSC - University of Sao Paulo Sao Carlos - SP - Brazil