Output Time Points

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Prof. Francisco Lopes

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Jul 29, 2022, 5:54:23 PM7/29/22
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Dear friends,

Thanks for accepting me into the group.

COPASI works very well in many Time Course stochastic simulations I have been running.  However, the output file is huge because I need to use a very small "Internal Size" of about 0.01.

Is there any way to reduce the number of time points saved in the Report Time-Course file?

Thanks,

Francisco.
PS. Thanks for developing this incredible software.

--
Francisco Lopes
M.Sc., Ph.D.
Associate Professor
Universidade Federal do Rio de Janeiro - UFRJ
Campus Duque de Caxias
Fone/whatsapp: +55 (21) 980.312.484




Hoops, Stefan (sh9cq)

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Jul 30, 2022, 8:57:05 AM7/30/22
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Hello Francisco,

You can reduce the output step size without compromising the accuracy
of the stochastic or deterministic solver. The internal step is
determined by the next reaction event time, the desired accuracy or an
internal step size as a method parameter.

Thanks,
Stefan
--
Stefan Hoops, Ph.D.
Research Associate Professor
Biocomplexity Institute & Initiative
University of Virginia
995 Research Park Boulevard
Charlottesville, VA 22911

Phone: +1 540 570 1301
Email: sho...@virginia.edu

Prof. Francisco Lopes

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Aug 9, 2022, 4:08:58 AM8/9/22
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Dear Stefan,

Thanks very much for your feedback. Actualy I have tried that but it didn't work. If I increase the time step from 0.01 to 0.1 I receive this message

>EXCEPTION 2022-08-09T05:04:31<
CTrajectoryMethod (12): Internal step limit exceeded.

I there any other parameter I could change to avoid this error message?

Regards,

Francisco 

Hoops, Stefan (sh9cq)

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Aug 9, 2022, 7:59:02 AM8/9/22
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Hello Francisco,

In that case you can increase the internal step limit.

Thanks,
Stefan

Prof. Francisco Lopes

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Aug 9, 2022, 9:02:21 AM8/9/22
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Hi Stefan,

Thank you very much. I did not realize that I could have this option :-|

Regards,

Francisco Lopes
M.Sc., Ph.D.
Associate Professor
Universidade Federal do Rio de Janeiro - UFRJ
Campus Duque de Caxias
Fone/whatsapp: +55 (21) 980.312.484


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