gmane.comp.gnu.mcsim

Debian package availability

Bill Harris — 2012-02-25T16:39:45

In case anyone else here runs Debian, I created a Debian package that
may be of help.  It's the first time I have shared one, so there may be
all sorts of problems.

I created it using ./configure, make, checkinstall on a Debian Squeeze
(6.0.3) amd64 architecture system.  libsbml 5.4.0 had been installed
previously.  I presume (and Frederic seems to agree) that the
./configure is general enough so that specifics besides being a 64-bit
system may not be an issue.

While I think I'm trustworthy, use it at your own risk.  It's not much
easier to use this than to build it locally, but it does save a few
minutes.

While I don't have much spare time, I do welcome your feedback.  If I
did something strange that's preventing it from being useful, perhaps I
can learn and then improve it to make it more generally useful.

You can find the download on the main MCSim page at
http://www.gnu.org/software/mcsim/.  

Bill

PS: If anyone has a foolproof installation for Windows (in particular,
for XP Pro or XP 64), I'm still interested.  I did that once years ago
with an earlier version of MCSim, but my recent attempts have failed.
An msi or the like would be great, if anyone is _really_ dedicated. :-)

MCSim and hysteresis?

Bill Harris — 2011-09-22T02:35:30

Has anyone here used MCSim to model a hysteresis process?  Think of the
energy used by a building as a control system (thermostat) turns on and
off.  Instead of a 0.25-0.5 degree C hysteresis band, as you might see
in a home system, think of a significant band -- perhaps a 5-10 degree
hysteresis band.  That's not quite the problem, but I hope it makes it
understandable. 

What I'd want is something like two linear (or perhaps nonlinear)
equations describing energy use per unit time as a function of outdoor
air temperature, one for each state of the system (there could be more
than two states, of course).  The model would need to estimate the
temperatures at which the system switched between the states, and I'd
want to be able to feed it a new path of temperatures and have it
calculate the distribution of predicted energy use per unit time for
that path.

I've looked at hidden Markov models, but I'm not sure the assumptions of
HMMs quite fit, and I've not made it work (R's depmixS4, for example).
It does nicely separate the observations and transitions, though.

I've looked at R's cusp, but I don't yet understand how to model the
observations and their uncertainty.

I've considered relearning Kalman filtering but haven't yet.

Any ideas on how to set up the model in MCSim?  Any examples?

Thanks,

Bill

problems: make[1]: ***[libmcsim.a] error 1

Binnian Wei — 2011-07-21T14:23:59

Hi Sir,

 

I am trying to install McSim to run it under Windows 7 system according
to the instructions as follows:
http://www.gnu.org/s/mcsim/WindowsInstall.html

 

 

I did one step by step until 11. Type 'make' at the command prompt. When
I type 'make', it reported that :

 

make[1]: *** [libmcsim.a] Error 1

make[1]: leaving directory '/cygdrive/c/mcsim/mcsim/sim'

make: [one] Error 2 ,ignored.

 

 

Would you help me to see what the problem is ? 

 

 

I have another question is that I have full understood this paragraph:"
libgsl: Get a binary distribution for Windows. This installation has
been tested with the GnuWin32 distribution of libgsl version 1.8,
available at http://gnuwin32.sourceforge.net as of 15 April 2008. There
are two choices for download: an installer that installs all of the
GnuWin32 packages in a common tree, or zip files for the 'bin' files
(some sample executables and the dlls) and the 'lib' files (files for
developing software). If you take the latter choice (the two zip files),
it would be convenient to extract them into the Rtools/mingw tree, as in
that case no additional configuration of Windows is required.
Alternatively, you need to modify the Makefiles so the path to the
dynamic library (.dll), library (.a), and include files (.h) are
available to the MinGW compiler."

 

 

Would you also help me on this? Really appreciated.

 

 

 

Bin

 

 

 

_______________________________________________
Help-mcsim mailing list
Help-mcsim< at >gnu.org
https://lists.gnu.org/mailman/listinfo/help-mcsim

problems: make[1]: ***[libmcsim.a] error 1

Binnian Wei — 2011-07-21T17:50:08

Hello,



I am trying to install McSim to run it under Windows 7 system according to
the instructions as follows:
http://www.gnu.org/s/mcsim/WindowsInstall.html





I did one step by step until 11. Type 'make' at the command prompt. When I
type ‘make’, it reported that :



make[1]: *** [libmcsim.a] Error 1

make[1]: leaving directory ‘/cygdrive/c/mcsim/mcsim/sim’

make: [one] Error 2 ,ignored.





Would you help me to see what the problem is ?





I have another question is that I have full understood this paragraph:” libgsl:
Get a binary distribution for Windows. This installation has been tested
with the GnuWin32 distribution of libgsl version 1.8, available at
http://gnuwin32.sourceforge.net as of 15 April 2008. There are two choices
for download: an installer that installs all of the GnuWin32 packages in a
common tree, or zip files for the 'bin' files (some sample executables and
the dlls) and the 'lib' files (files for developing software). If you take
the latter choice (the two zip files), it would be convenient to extract
them into the Rtools/mingw tree, as in that case no additional configuration
of Windows is required. Alternatively, you need to modify the Makefiles so
the path to the dynamic library (.dll), library (.a), and include files (.h)
are available to the MinGW compiler.”





Would you also help me on this?    Really appreciated.







Bin
_______________________________________________
Help-mcsim mailing list
Help-mcsim< at >gnu.org
https://lists.gnu.org/mailman/listinfo/help-mcsim

Stochastic optimization with MCSim

Frederic Y. Bois — 2010-06-18T21:49:13

New code (available on Savannah) allows you to perform stochastic optimization
with GNU MCSim. The MCMC simulation type flag needs to be set to value "4"...

configure: error: You first need to install the'gslcblas' library to build MCSim

Bill Harris — 2010-05-04T05:28:43

This is mildly embarrassing, for I think I should know what to do.  I'm
coming back to MCSim for some work I need to do -- work I intended to do
tonight -- and I'm stuck.

I'm running Ubuntu 9.10 (32-bit), and I just installed MCSim v5.3.1.  I
first tried from CVS, but I couldn't find configure, so I grabbed the
tarball, and that worked.

Then I tried configure and got

,----
| ~/bin/mcsim-v5.3.1/mcsim$ ./configure
| checking for gcc... gcc
| checking for C compiler default output file name... a.out
| checking whether the C compiler works... yes
| checking whether we are cross compiling... no
| checking for suffix of executables... 
| checking for suffix of object files... o
| checking whether we are using the GNU C compiler... yes
| checking whether gcc accepts -g... yes
| checking for gcc option to accept ANSI C... none needed
| checking for a BSD-compatible install... /usr/bin/install -c
| checking whether make sets $(MAKE)... yes
| checking for gzip... yes
| checking for gnuplot... yes
| checking for wish... yes
| checking for info... yes
| checking for install-info... yes
| checking for makeinfo... yes
| checking for gv... yes
| checking for touch... yes
| checking for date... yes
| checking for tex... yes
| checking for texi2dvi... yes
| checking for dvi2ps... no
| checking for texi2html... yes
| checking for main in -lm... yes
| checking for main in -lgslcblas... no
| configure: error: You first need to install the 'gslcblas' library to build MCSim
`----

I found http://osdir.com/ml/help-mcsim-gnu/2009-08/msg00001.html and
http://osdir.com/ml/help-mcsim-gnu/2009-08/msg00002.html.  Running
sudo ldconfig -v didn't help.  I gather you only need to set
LD_LIBRARY_PATH if libgsl isn't in /usr/lib, but

,----
|   /usr/lib:
|   total used in directory 488844 available 15233936
|   .
|   .
|   .
|   lrwxrwxrwx   1 root root       20 2009-11-29 18:04 libgslcblas.so.0 -> libgslcblas.so.0.0.0
|   -rw-r--r--   1 root root   226580 2008-12-22 05:28 libgslcblas.so.0.0.0
|   lrwxrwxrwx   1 root root       16 2009-11-29 18:04 libgsl.so.0 -> libgsl.so.0.13.0
|   -rw-r--r--   1 root root  1964616 2008-12-22 05:28 libgsl.so.0.13.0
|   .
|   .
|   .
`----

I did try 

,----
| ~/bin/mcsim-v5.3.1/mcsim$ export LD_LIBRARY_PATH=/usr/lib
| ~/bin/mcsim-v5.3.1/mcsim$ echo $LD_LIBRARY_PATH
`----

but ./configure still failed in the same way.

Finally, I found an old email from Frédéric suggesting to use 

,----
| gcc *.c -lm -lgsl -lgslcblas 
`----

instead of make.  I tried running find to find *.c files and pass them
to gcc, but that failed with lots of 

,----
| /usr/bin/ld: cannot find -lgsl
| collect2: ld returned 1 exit status
`----

and other errors.

I did have 5.2.beta working sometime in late 2008 / early 2009, but I've
been away from it since then.  Can anyone point out the obvious error in
my ways?  I now have a real need for MCMC applied to a dynamic model.

Thanks,

Bill

MCSIM installation

Rudy Gunawan — 2010-01-18T23:10:05

Hi,

I have been trying to install MCSim on Windows XP. I have already had C 
compilers, both gcc and lcc. 'Mod' has already worked properly (I guess). When 
I did 'mod perc.model', it gives me 'model.c' as expected. Nevertheless, the 
problem arises when I attempt to compile 'model.c', it gave me there errors:

"... undefined reference to _vbModelReinitd"
"... undefined reference to CalcInputs"
"... undefined WinMain< at >16"

While the last error can be fixed by adding 

int main(int argc, char *argv[]) {
    return 0;
}

into model.c, I have no clue for the first two errors. I have followed the 
aforementioned steps. I put 'mod.exe' into the 'sim' folder. Moreover, I 
move 'perc.model' into the 'sim' folder in order to link it with the other sim 
files. 

So if anybody has some suggestions, please share. Thank you very much.

Configure problems

Anna-Karin Mork — 2009-08-04T14:32:33

Hi,

I am trying to install McSim to run it on a cluster and can therefore
not use the standard installation (/usr/local/..).  When trying to
configure I get this:

h18n01$ ./configure --prefix=$HOME
LDFLAGS=-L/afs/pdc.kth.se/home/a/akmork/lib       
      
checking for gcc... gcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ANSI C... none needed
checking for a BSD-compatible install... /usr/bin/install -c
checking whether make sets $(MAKE)... yes
checking for gzip... yes
checking for gnuplot... no
checking for wish... no
checking for info... yesI have installed the GSL library in my home
directory $HOME/lib.
checking for install-info... no
checking for makeinfo... yes
checking for gv... no
checking for touch... yes
checking for date... yes
checking for tex... no
postscript not generated
checking for dvi2ps... no
checking for texi2html... no
checking for main in -lm... yes
checking for main in -lgslcblas... no
configure: error: You first need to install the 'gslcblas' library to
build MCSim

h18n01$ cd ~/lib
h18n01$ ls
libgsl.a   libgsl.so.0      libgslcblas.la    libgslcblas.so.0.0.0
libgsl.la  libgsl.so.0.8.0  libgslcblas.so    pkgconfig
libgsl.so  libgslcblas.a    libgslcblas.so.0

What am I doing wrong?

Thanks!
Anna-Karin