Try to match the names of the known structure file in the alignment file and the top file. Remember also that the name is case-sensitive .
Han
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From: modeller_usage-bounces@salilab.org [mailto:modeller_usage- bounces@salilab.org] On Behalf Of 서주현 Sent: Monday, October 18, 2004 9:03 PM To: modeller_usage@salilab.org Subject: [Spam][modeller_usage] Modeller stopped with no specific error message
Dear modellers !
I automatically generated .ali, .top file with python script. And I executed modeller with python script “ os.popen(“mod6v2 model.top”) “. But modeller stopped in about one second with no result(model). In log file, most strange thing was that there was no specific error message. I can’t figure out this error……Is there anyone who can solve this problem? Any help will be much appreciated.. I attach my .ali file and .top file. And message in log file is in below.
Kind, OS, HostName, Kernel, Processor: 4, Linux Canddy 2.4.18-14 i686 Date and time of compilation : 07/16/2002 11:42:16 Job starting time (YY/MM/DD HH:MM:SS): 2004/10/18 21:05:28.434
Dynamically allocated memory at finish [B,kB,MB]: 2200483 2148.909 2.099 Starting time : 2004/10/18 21:05:28.434 Closing time : 2004/10/18 21:05:29.297 Total CPU time [seconds] : 0.84
Sincerely, Joo-Hyun Seo
Joo-Hyun Seo School of Chemical Engineering & Institute of Molecular Biology and Genetics Seoul National University, Seoul 151-742, Korea
Tel)+82 2 880 7528 Fax)+82 2 874 1206 E-mail) mailto:seojoohyun@nate.com seojoohyun@nate.com, mailto:01191219079@nate.com 01191219079@nate.com
Joo-Hyun Seo,
Molecular Biotechnology & Biomaterials Lab.,
School of Chemical Engineering,
Seoul National University
Tel)+82 2 880 7528 Fax)+82 2 874 1206 E-mail) seojoohyun@nate.com, 01191219079@nate.com
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On Mon, Oct 18, 2004 at 09:03:29PM +0900, �??주�?? wrote: > I automatically generated .ali, .top file with python script. And I > executed modeller with python script os.popen("mod6v2 model.top"). But > modeller stopped in about one second with no result(model). In log file, > most strange thing was that there was no specific error message. I > can't figure out this error!�Is there anyone who can solve this problem?
>From your output, it looks like Modeller just ran normally, and then finished. You should insert the following at the start of your TOP script to see in more detail what it's doing: SET OUTPUT_CONTROL = 1 1 1 1 1
Ben Webb, Modeller Caretaker
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서주현