Hi All,
After sending e-mail yesterday, I received several e-mails and all told me I should see the .log file in the same directory. But I am sure there is no .log file in the directory. I am using MODELLER 6v2 for Windows and my operation system is Window 2000. I run "mod model-default" in windows command prompt "C:\mod6v2\examples\tutorial-model>". Following is the model-default.top file:
# 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 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
After running "mod model-default", I only got six files: "1fdx.V99990001, 1fdx.D00000001, 1fdx.B99990001, 1fdx.sch, 1fdx.rsr and 1fdx.ini. I can open the 1fdx.B99990001 by a viewer.
Thanks for all your help,
Dong
Hi,
The last line of your 'mod.bat' file, which probably looks like this:
%MODINSTALL6v2%\bin\modeller6v2 %1 %2 %3 %4 %5 %6 %7 %8 %9
...should be
%MODINSTALL6v2%\bin\modeller6v2 %1 %2 %3 %4 %5 %6 %7 %8 %9 > %1.log
This will redirect all the output to the file instead of screen.
Cheers,
mensur
On Tue, 8 Apr 2003, Dong Chen wrote:
|>Hi All, |> |>After sending e-mail yesterday, I received several e-mails and all told me I should see the .log file in the same directory. But I am sure there is no .log file in the directory. I am using MODELLER 6v2 for Windows and my operation system is Window 2000. I run "mod model-default" in windows command prompt "C:\mod6v2\examples\tutorial-model>". Following is the model-default.top file:
=========================================================================== | Mensur Dlakic, PhD | Tel: (734) 764-3554 | | Department of Biological Chemistry | Fax: (734) 615-3397 | | University of Michigan Medical School | http://www.umich.edu/~mensur/ | | 5416 Medical Science I | http://myprofile.cos.com/mensur | | Ann Arbor, MI 48109-0606 | E-mail: mensur@umich.edu | ===========================================================================
Hi Mensur,
After I made the change as you said, it redirected all the output to the log file instead of screen.
Thank you very much for your help!
Dong
-----Original Message----- From: Mensur Dlakic [mailto:mensur@umich.edu] Sent: Tuesday, April 08, 2003 11:54 AM To: Dong Chen Cc: modeller_usage@salilab.org Subject: Re: can't find Log file
Hi,
The last line of your 'mod.bat' file, which probably looks like this:
%MODINSTALL6v2%\bin\modeller6v2 %1 %2 %3 %4 %5 %6 %7 %8 %9
...should be
%MODINSTALL6v2%\bin\modeller6v2 %1 %2 %3 %4 %5 %6 %7 %8 %9 > %1.log
This will redirect all the output to the file instead of screen.
Cheers,
mensur
On Tue, 8 Apr 2003, Dong Chen wrote:
|>Hi All, |> |>After sending e-mail yesterday, I received several e-mails and all |>told me I should see the .log file in the same directory. But I am |>sure there is no .log file in the directory. I am using MODELLER 6v2 |>for Windows and my operation system is Window 2000. I run "mod |>model-default" in windows command prompt |>"C:\mod6v2\examples\tutorial-model>". Following is the |>model-default.top file:
======================================================================== === | Mensur Dlakic, PhD | Tel: (734) 764-3554 | | Department of Biological Chemistry | Fax: (734) 615-3397 | | University of Michigan Medical School | http://www.umich.edu/~mensur/ | | 5416 Medical Science I | http://myprofile.cos.com/mensur | | Ann Arbor, MI 48109-0606 | E-mail: mensur@umich.edu | ======================================================================== ===
-
Dong Chen -
Mensur Dlakic