xmds-user — All topics related to XMDS that are relevant to the entire user base.

Re: [xmds-user] Installation problems

[Joseph H. <jos...@an...>]

Ilya,

I'm guessing, but it looks like you've installed fftw somewhere  
nonstandard.  (Your home directory)

You've told the configure script to look for the header file in your  
home directory, and it found it, but compiling any program doesn't  
seem to work.

Options:

	1. Try installing FFTW in the default location (/usr/local, but you  
won't need to specify.  Remember you'll probably need to use sudo to  
perform the "make install").  Then XMDS should have no trouble.

	2.  Install it somewhere else, but make sure you can compile a test  
program in FFTW.  Whatever library/path options you need to compile  
an FFTW program have to be given to the XMDS configure script.

Both are easy in principle, but the first version is certainly much  
simpler if you have the option.

Joe



Dr. Joseph Hope
jos...@an...
Dept. of Physics, Faculty of Science,
Building 38a,
Australian National University,
Canberra, ACT 0200, AUSTRALIA

Phone: +61 2 6125 2780, Fax: +61 2 6125 0741
The Australian National University:  CRICOS 00120C

I can't understand why people are frightened of new ideas. I'm  
frightened of the old ones. -- John Cage




On 02/04/2007, at 3:09 AM, Ilya Merhasin wrote:

> Hello,
>
> I also have troubles installing Xmds on a Linux into a user directory.
>
> Before installing Xmds I have installed FFTW (both versions 2 and 3).
>
> But, trying to install Xmds I get the following message:
>
> checking for "/home/eleya/include/"fftw.h... yes
> checking for fftw_create_plan in -lfftw... no
> Bummer!  fftw doesn't seem to work
> You need fftw to use xmds properly.
> Please download from http://www.fftw.org
> install it, and try configuring xmds again
>
> Please, help!!
>
>
> Regards,
> Ilya Merhasin
>
>
>
>
> ----------------------------------------------------------------
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>
>
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[xmds-user] Installation problems

[Ilya M. <mer...@po...>]

Hello,

I also have troubles installing Xmds on a Linux into a user directory.

Before installing Xmds I have installed FFTW (both versions 2 and 3).

But, trying to install Xmds I get the following message:

checking for "/home/eleya/include/"fftw.h... yes
checking for fftw_create_plan in -lfftw... no
Bummer!  fftw doesn't seem to work
You need fftw to use xmds properly.
Please download from http://www.fftw.org
install it, and try configuring xmds again

Please, help!!


Regards,
Ilya Merhasin




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Re: [xmds-user] Installation problems

[Matthew D. <md...@ph...>]

Hi David,

I'm pretty sure the latest version of xmds requires both fftw 3.x and 
fftw 2.1.x to be installed.  This is because fftw 3.x doesn't have some 
of the transforms required for the MPI implementation.  Simply install 
2.1.x as well and have another go.

Matt.

-- 
=========================================================================
Dr M. J. Davis,               Senior Lecturer in Physics
School of Physical Sciences,  email: md...@ph...
University of Queensland,     ph   : +61 7 334 69824
Brisbane, QLD 4072,           fax  : +61 7 336 51242
Australia.                    http://www.physics.uq.edu.au/people/mdavis/
=========================================================================
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         http://www.physics.uq.edu.au/people/mdavis/matts_arXiv/
=========================================================================
Legal stuff: Unless stated otherwise, this e-mail represents only the
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[xmds-user] Installation problems

[David <dav...@ma...>]

Hello,

I am having some trouble installing XmdS on my Mac. I'm pretty sure  
the fftw has been installed correctly as I could locate the fftw3.h  
header file in usr/local/include for instance. However is there a  
difference between fftw3.h and the fftw.h file, which is asked for in  
the XmdS configure installation script?

I managed to get it working with the previous version of fftw(2.1.5).  
Could it be that XmdS just isn't compatible with the 3.1 version?

If you  could please have a look at the error message below and tell  
me what you think I would be thankful.

The problem looks like this:

"jensen05:/Applications/xmds-1.5-3 david$ sudo ./configure --with- 
path=/usr/local/include
Password:
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for gawk... no
checking for mawk... no
checking for nawk... no
checking for awk... awk
checking whether make sets $(MAKE)... yes
checking for vendor's cc to be used instead of gcc... checking for  
cc... cc
checking for vendor's cxx to be used instead of gcc... checking for  
cxx... no
checking for g++... g++
checking for C++ compiler default output file name... a.out
checking whether the C++ compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking for style of include used by make... GNU
checking dependency style of g++... gcc3
checking whether we are using the GNU C compiler... yes
checking whether cc accepts -g... yes
checking for cc option to accept ANSI C... none needed
checking dependency style of cc... gcc3
checking for library containing strerror... none required
checking for icc... no
checking for a BSD-compatible install... /usr/bin/install -c
checking whether ln -s works... yes
checking for ranlib... ranlib
checking for sqrt in -lm... yes
checking for cout in -lstdc++... no
checking how to run the C preprocessor... cc -E
checking for egrep... grep -E
checking for ANSI C header files... yes
checking for working alloca.h... yes
checking for alloca... yes
checking determining processor byte ordering... big
checking for unsigned long... yes
checking size of unsigned long... 4
checking fftw.h usability... no
checking fftw.h presence... no
checking for fftw.h... no
Eeek!  I can't find fftw.h!
It doesn't look like you'll be able to use fftw
Are you sure that --with-fftw-path is set correctly?
checking for fftw_create_plan in -lfftw... no
Bummer!  fftw doesn't seem to work
You need fftw to use xmds properly.
Please download from http://www.fftw.org
install it, and try configuring xmds again
jensen05:/Applications/xmds-1.5-3 david$ "
jensen05:/Applications/xmds-1.5-3 david$ "

Best regards David

Re: [xmds-user] help

[Joseph H. <jos...@an...>]

Xiong Bo,

This sounds like FFTW simply isn't working.  The relevant header =20
files are there, but the simplest possible test program didn't =20
compile.  First question:  did you install version 2.1.5?  The latest =20=

version of FFTW cannot be used by itself, and you need version 2.1.5

Finding the relevant part of the generated file "config.log" will =20
give us more information.  At worst, send the whole thing.

The best way to debug this is to try the test programs that came with =20=

FFTW.  Once that's working it will be easy to apply that to XMDS.

Joe


Dr. Joseph Hope
jos...@an...
Dept. of Physics, Faculty of Science,
Building 38a,
Australian National University,
Canberra, ACT 0200, AUSTRALIA

Phone: +61 2 6125 2780, Fax: +61 2 6125 0741
The Australian National University:  CRICOS 00120C

I can't understand why people are frightened of new ideas. I'm =20
frightened of the old ones. -- John Cage




On 22/03/2007, at 9:32 PM, Xiong Bo wrote:

> After runing ./configure on cygwin system, I meet following trouble.
> Can ayone help me?
> Thanks
>
>
> checking fftw.h usability... yes
> checking fftw.h presence... yes
> checking for fftw.h... yes
> checking for fftw_create_plan in -lfftw... no
> Bummer!  fftw doesn't seem to work
> You need fftw to use xmds properly.
> Please download from http://www.fftw.org
> install it, and try configuring xmds again
>
> _________________________________________________________________
> =E5=85=8D=E8=B4=B9=E4=B8=8B=E8=BD=BD MSN Explorer:   =
http://explorer.msn.com/lccn
>
> ----------------------------------------------------------------------=20=

> ---
> Take Surveys. Earn Cash. Influence the Future of IT
> Join SourceForge.net's Techsay panel and you'll get the chance to =20
> share your
> opinions on IT & business topics through brief surveys-and earn cash
> http://www.techsay.com/default.php?=20
> page=3Djoin.php&p=3Dsourceforge&CID=3DDEVDEV
> _______________________________________________
> xmds-user mailing list
> xmd...@li...
> https://lists.sourceforge.net/lists/listinfo/xmds-user

[xmds-user] help

[Xiong B. <box...@ho...>]

After runing ./configure on cygwin system, I meet following trouble.
Can ayone help me?
Thanks


checking fftw.h usability... yes
checking fftw.h presence... yes
checking for fftw.h... yes
checking for fftw_create_plan in -lfftw... no
Bummer!  fftw doesn't seem to work
You need fftw to use xmds properly.
Please download from http://www.fftw.org
install it, and try configuring xmds again

_________________________________________________________________
免费下载 MSN Explorer:   http://explorer.msn.com/lccn  

[xmds-user] Stochastic NO Differential Equations in xmds.

[Virginia M. <vma...@gm...>]

 Hello:

 I have a problem with the XMDS  simulator :
 I must simulate a Stochastic Equations but that it isn't a Differential
Equation and I do not know to do it with XMDS simulator.
 Is it possible to simulate a Stochastic Equations that it does not have
"derived" (derivadas = not is Differential)  in simulator XMDS?

Can you  send me a example of a xmds program that it represents a Stochastic
Equations (simple) ???


Thank you very much!!
I can your help!

Virginia Manguero (Spain)

[xmds-user] Stochastic NO Differential Equations in xmds.

[Virginia M. <vma...@gm...>]

 Hello:

 I have a problem with the XMDS  simulator :
 I must simulate a Stochastic Equations but that it isn't a Differential
Equation and I do not know to do it with XMDS simulator.
 Is it possible to simulate a Stochastic Equations that it does not have
"derived" (derivadas = not is Differential)  in simulator XMDS?

Can you  send me a example of a xmds program that it represents a Stochastic
Equations (simple) ???


Thank you very much!!
I can your help!

Virginia Manguero (Spain)

[xmds-user] Publications using xmds?

[Paul C. <pau...@gm...>]

Hi everyone,

There is a very old and very incomplete list of publications
acknowledging xmds as being used in their production; do people have
any more publications which have used xmds?  If so, could you please
send me the citations so that I can update the web site?  This
includes talks/posters/papers, so anything basically.

Thanks heaps!

Paul

Re: [xmds-user] Calculate the ground state of a BECs in a harmonic trap

[Joseph H. <Jos...@an...>]

Ah!  Now I understand.  It's been in the CVS all this time, but not  
in the makefile for making distributions.  Many apologies.
The version from the svn server is found at this link:

http://xmds.svn.sourceforge.net/viewvc/*checkout*/xmds/trunk/xmds- 
devel/examples/groundstate.xmds?revision=1193

Watch out for a powerful new version about to be released!  (Now with  
extra examples ;)

Joe


Dr. Joseph Hope
jos...@an...
Dept. of Physics, Faculty of Science,
Building 38a,
Australian National University,
Canberra, ACT 0200, AUSTRALIA

Phone: +61 2 6125 2780, Fax: +61 2 6125 0741
The Australian National University:  CRICOS 00120C

I can't understand why people are frightened of new ideas. I'm  
frightened of the old ones. -- John Cage




On 16/01/2007, at 1:22 PM, marchriver wrote:

> Dear J Hope
>
> I have checked example folders of the versions 1.5-1,1.5-2 and 1.5-3.
> but there is not a file named groundstate.xmds. Maybe something is
> wrong.
>
> I will try to change the script with your directing.
>
> Thank you.
> W. Li
>
> On Tue, 2007-01-16 at 12:38 +1100, Joseph Hope wrote:
>> Weibin Li and Karen,
>>
>>
>> The example files are all in a subdirectory called "examples".  Go to
>> your xmds folder itself and have a look - most examples are not
>> explained in the documentation, or on the web - they just come with
>> the program to speed development.  (and for situations like this).
>>
>>
>> There are a lot of them in there, but groundstate.xmds has been there
>> since Nov 2005.  If you don't have that directory, then there may be
>> bigger problems than simply missing that file.
>>
>>
>> Weibin Li:  Your example doesn't work because <filter> only goes in a
>> <sequence> element.  To do what you're trying, use the "cycles"
>> command to loop through successive <integrate> and <filter> elements.
>> This is how the example works.
>>
>>
>> Joe
>>
>>
>>
>>
>>
>> Dr. Joseph Hope
>>
>> jos...@an...
>>
>> Dept. of Physics, Faculty of Science,
>>
>> Building 38a,
>>
>> Australian National University,
>>
>> Canberra, ACT 0200, AUSTRALIA
>>
>>
>> Phone: +61 2 6125 2780, Fax: +61 2 6125 0741
>>
>> The Australian National University:  CRICOS 00120C
>>
>>
>> I can't understand why people are frightened of new ideas. I'm
>> frightened of the old ones. -- John Cage
>>
>>
>>
>>
>>
>>
>>
>> On 16/01/2007, at 12:02 PM, marchriver wrote:
>>
>>> Dear Prof. J Hope
>>>
>>>
>>> Thank you for your reply.
>>>
>>>
>>> But it seems that the example(groundstate.xmds) you specified is not
>>> in
>>> the example list. May you transfer me it by email?
>>>
>>>
>>> Thank you very much.
>>> PS:I have attached my script.  As I have said, it doesn't work. But
>>> I
>>> think it results from that I am a newer in XMDS.  I use the
>>> Ubuntu-linux-6.06 distribution and XMDS-1.5-3.
>>>
>>>
>>>
>>>
>>> yours
>>> Weibin Li
>>> On Tue, 2007-01-16 at 10:40 +1100, Joseph Hope wrote:
>>>> I don't have the attached code, but there is an example in the
>>>> examples directory doing exactly this.
>>>>
>>>>
>>>>
>>>>
>>>> Look at "groundstate.xmds".  The output could be done better with
>>>> the
>>>> new breakpoint element replacing the final empty integrate block,
>>>> but
>>>> it's a working example.
>>>>
>>>>
>>>>
>>>>
>>>> Joe
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> Dr. Joseph Hope
>>>>
>>>>
>>>> jos...@an...
>>>>
>>>>
>>>> Dept. of Physics, Faculty of Science,
>>>>
>>>>
>>>> Building 38a,
>>>>
>>>>
>>>> Australian National University,
>>>>
>>>>
>>>> Canberra, ACT 0200, AUSTRALIA
>>>>
>>>>
>>>>
>>>>
>>>> Phone: +61 2 6125 2780, Fax: +61 2 6125 0741
>>>>
>>>>
>>>> The Australian National University:  CRICOS 00120C
>>>>
>>>>
>>>>
>>>>
>>>> I can't understand why people are frightened of new ideas. I'm
>>>> frightened of the old ones. -- John Cage
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> On 16/01/2007, at 7:03 AM, Paul Cochrane wrote:
>>>>
>>>>
>>>>> Weibin Li,
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> Great to see you're using xmds!  :-)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>> I try to use XMDS to calculate the ground state of a BECs in a
>>>>>> harmonic
>>>>>> trap. The equation is similar to the NLSE except with a
>>>>>> additional
>>>>>> trap
>>>>>> potential, which has the x^2*phi form. Usually, we have to use
>>>>>> the
>>>>>> image
>>>>>> time evolution method, i.e., t becomes i*t. Then the equation
>>>>>> will
>>>>>> evolve to
>>>>>> its ground state. But to do this, we must make the equation
>>>>>> normalization by
>>>>>> every time step, abs(phi*phi)=1. The XMDS code seems to use
>>>>>> the
>>>>>> <filter> and
>>>>>> <moment_group> to do this. But I don't know how to use them.
>>>>>> The
>>>>>> attached
>>>>>> code doesn't work. Will you give me some clues?
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> I'm forwarding your message to the xmds-user mailing list where
>>>>> there
>>>>> are people who will be able to answer your question as
>>>>> unfortunately
>>>>> I'm not a current xmds user.
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> Good luck with solving your problem!
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> Paul
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> ------------------------------------------------------------------ 
>>>>> -------
>>>>> Take Surveys. Earn Cash. Influence the Future of IT
>>>>> Join SourceForge.net's Techsay panel and you'll get the chance
>>>>> to
>>>>> share your
>>>>> opinions on IT & business topics through brief surveys - and
>>>>> earn
>>>>> cash
>>>>> http://www.techsay.com/default.php? 
>>>>> page=join.php&p=sourceforge&CID=DEVDEV
>>>>> _______________________________________________
>>>>> xmds-user mailing list
>>>>> xmd...@li...
>>>>> https://lists.sourceforge.net/lists/listinfo/xmds-user
>>>>
>>>>
>>>>
>>>> <gstate.xmds>
>>
>>
>

Re: [xmds-user] Calculate the ground state of a BECs in a harmonic trap

[Joseph H. <Jos...@an...>]

Weibin Li and Karen,

The example files are all in a subdirectory called "examples".  Go to  
your xmds folder itself and have a look - most examples are not  
explained in the documentation, or on the web - they just come with  
the program to speed development.  (and for situations like this).

There are a lot of them in there, but groundstate.xmds has been there  
since Nov 2005.  If you don't have that directory, then there may be  
bigger problems than simply missing that file.

Weibin Li:  Your example doesn't work because <filter> only goes in a  
<sequence> element.  To do what you're trying, use the "cycles"  
command to loop through successive <integrate> and <filter>  
elements.  This is how the example works.

Joe



Dr. Joseph Hope
jos...@an...
Dept. of Physics, Faculty of Science,
Building 38a,
Australian National University,
Canberra, ACT 0200, AUSTRALIA

Phone: +61 2 6125 2780, Fax: +61 2 6125 0741
The Australian National University:  CRICOS 00120C

I can't understand why people are frightened of new ideas. I'm  
frightened of the old ones. -- John Cage




On 16/01/2007, at 12:02 PM, marchriver wrote:

> Dear Prof. J Hope
>
> Thank you for your reply.
>
> But it seems that the example(groundstate.xmds) you specified is  
> not in
> the example list. May you transfer me it by email?
>
> Thank you very much.
> PS:I have attached my script.  As I have said, it doesn't work. But I
> think it results from that I am a newer in XMDS.  I use the
> Ubuntu-linux-6.06 distribution and XMDS-1.5-3.
>
>
> yours
> Weibin Li
> On Tue, 2007-01-16 at 10:40 +1100, Joseph Hope wrote:
>> I don't have the attached code, but there is an example in the
>> examples directory doing exactly this.
>>
>>
>> Look at "groundstate.xmds".  The output could be done better with the
>> new breakpoint element replacing the final empty integrate block, but
>> it's a working example.
>>
>>
>> Joe
>>
>>
>>
>> Dr. Joseph Hope
>>
>> jos...@an...
>>
>> Dept. of Physics, Faculty of Science,
>>
>> Building 38a,
>>
>> Australian National University,
>>
>> Canberra, ACT 0200, AUSTRALIA
>>
>>
>> Phone: +61 2 6125 2780, Fax: +61 2 6125 0741
>>
>> The Australian National University:  CRICOS 00120C
>>
>>
>> I can't understand why people are frightened of new ideas. I'm
>> frightened of the old ones. -- John Cage
>>
>>
>>
>>
>>
>>
>>
>> On 16/01/2007, at 7:03 AM, Paul Cochrane wrote:
>>
>>> Weibin Li,
>>>
>>>
>>> Great to see you're using xmds!  :-)
>>>
>>>
>>>> I try to use XMDS to calculate the ground state of a BECs in a
>>>> harmonic
>>>> trap. The equation is similar to the NLSE except with a additional
>>>> trap
>>>> potential, which has the x^2*phi form. Usually, we have to use the
>>>> image
>>>> time evolution method, i.e., t becomes i*t. Then the equation will
>>>> evolve to
>>>> its ground state. But to do this, we must make the equation
>>>> normalization by
>>>> every time step, abs(phi*phi)=1. The XMDS code seems to use the
>>>> <filter> and
>>>> <moment_group> to do this. But I don't know how to use them. The
>>>> attached
>>>> code doesn't work. Will you give me some clues?
>>>
>>>
>>> I'm forwarding your message to the xmds-user mailing list where
>>> there
>>> are people who will be able to answer your question as unfortunately
>>> I'm not a current xmds user.
>>>
>>>
>>> Good luck with solving your problem!
>>>
>>>
>>> Paul
>>>
>>>
>>> -------------------------------------------------------------------- 
>>> -----
>>> Take Surveys. Earn Cash. Influence the Future of IT
>>> Join SourceForge.net's Techsay panel and you'll get the chance to
>>> share your
>>> opinions on IT & business topics through brief surveys - and earn
>>> cash
>>> http://www.techsay.com/default.php? 
>>> page=join.php&p=sourceforge&CID=DEVDEV
>>> _______________________________________________
>>> xmds-user mailing list
>>> xmd...@li...
>>> https://lists.sourceforge.net/lists/listinfo/xmds-user
>>
>>
>> <gstate.xmds>

Re: [xmds-user] Calculate the ground state of a BECs in a harmonic trap

[Joseph H. <jos...@an...>]

I don't have the attached code, but there is an example in the  
examples directory doing exactly this.

Look at "groundstate.xmds".  The output could be done better with the  
new breakpoint element replacing the final empty integrate block, but  
it's a working example.

Joe


Dr. Joseph Hope
jos...@an...
Dept. of Physics, Faculty of Science,
Building 38a,
Australian National University,
Canberra, ACT 0200, AUSTRALIA

Phone: +61 2 6125 2780, Fax: +61 2 6125 0741
The Australian National University:  CRICOS 00120C

I can't understand why people are frightened of new ideas. I'm  
frightened of the old ones. -- John Cage




On 16/01/2007, at 7:03 AM, Paul Cochrane wrote:

> Weibin Li,
>
> Great to see you're using xmds!  :-)
>
>> I try to use XMDS to calculate the ground state of a BECs in a  
>> harmonic
>> trap. The equation is similar to the NLSE except with a additional  
>> trap
>> potential, which has the x^2*phi form. Usually, we have to use the  
>> image
>> time evolution method, i.e., t becomes i*t. Then the equation will  
>> evolve to
>> its ground state. But to do this, we must make the equation  
>> normalization by
>> every time step, abs(phi*phi)=1. The XMDS code seems to use the  
>> <filter> and
>> <moment_group> to do this. But I don't know how to use them. The  
>> attached
>> code doesn't work. Will you give me some clues?
>
> I'm forwarding your message to the xmds-user mailing list where there
> are people who will be able to answer your question as unfortunately
> I'm not a current xmds user.
>
> Good luck with solving your problem!
>
> Paul
>
> ---------------------------------------------------------------------- 
> ---
> Take Surveys. Earn Cash. Influence the Future of IT
> Join SourceForge.net's Techsay panel and you'll get the chance to  
> share your
> opinions on IT & business topics through brief surveys - and earn cash
> http://www.techsay.com/default.php? 
> page=join.php&p=sourceforge&CID=DEVDEV
> _______________________________________________
> xmds-user mailing list
> xmd...@li...
> https://lists.sourceforge.net/lists/listinfo/xmds-user

Re: [xmds-user] Calculate the ground state of a BECs in a harmonic trap

[Paul C. <pau...@gm...>]

Weibin Li,

Great to see you're using xmds!  :-)

> I try to use XMDS to calculate the ground state of a BECs in a harmonic
> trap. The equation is similar to the NLSE except with a additional trap
> potential, which has the x^2*phi form. Usually, we have to use the image
> time evolution method, i.e., t becomes i*t. Then the equation will evolve to
> its ground state. But to do this, we must make the equation normalization by
> every time step, abs(phi*phi)=1. The XMDS code seems to use the <filter> and
> <moment_group> to do this. But I don't know how to use them. The attached
> code doesn't work. Will you give me some clues?

I'm forwarding your message to the xmds-user mailing list where there
are people who will be able to answer your question as unfortunately
I'm not a current xmds user.

Good luck with solving your problem!

Paul

Re: [xmds-user] using "advanced" math

[Joseph H. <jos...@an...>]

Christian,

XMDS is just a wrapper for C++, so any functions in the standard or  
math libraries will work.  Efficient code for exotic functions can  
often be found on the web, but if you want to use an extra library:

1.  Put the "#include <yourlibraryheader.h>" line in the <globals>  
element (probably at the top).

2.  Add the compiler options for the library in question to your  
compilation of XMDS.  The easiest way to do this is by putting the  
library calls in your xmds.prefs file.

Joe

Dr. Joseph Hope
jos...@an...
Dept. of Physics, Faculty of Science,
Building 38a,
Australian National University,
Canberra, ACT 0200, AUSTRALIA

Phone: +61 2 6125 2780, Fax: +61 2 6125 0741
The Australian National University:  CRICOS 00120C

I can't understand why people are frightened of new ideas. I'm  
frightened of the old ones. -- John Cage




On 04/01/2007, at 1:59 AM, Christian T. Steigies wrote:

> Hi,
> which mathematical functions can I use in an xmds script, is there  
> a list
> somewhere? For example, if I wanted to use the Gamma or Bessel  
> functions, I
> assume they are not supported by xmds, since there is no mention of  
> them in
> the docs, faq, or examples, do I have to write those functions  
> myself or
> could I use them from a support library like gsl?
>
> Christian
>
> ---------------------------------------------------------------------- 
> ---
> Take Surveys. Earn Cash. Influence the Future of IT
> Join SourceForge.net's Techsay panel and you'll get the chance to  
> share your
> opinions on IT & business topics through brief surveys - and earn cash
> http://www.techsay.com/default.php? 
> page=join.php&p=sourceforge&CID=DEVDEV
> _______________________________________________
> xmds-user mailing list
> xmd...@li...
> https://lists.sourceforge.net/lists/listinfo/xmds-user

[xmds-user] using "advanced" math

[Christian T. S. <ct...@de...>]

Hi,
which mathematical functions can I use in an xmds script, is there a list
somewhere? For example, if I wanted to use the Gamma or Bessel functions, I
assume they are not supported by xmds, since there is no mention of them in
the docs, faq, or examples, do I have to write those functions myself or
could I use them from a support library like gsl?

Christian

Re: [xmds-user] working with xmds -question

[Paul C. <pau...@gm...>]

TWFyaWFuYSwKCkdyZWF0IHRoYXQgeW91J3ZlIHN0YXJ0ZWQgdXNpbmcgeG1kcyEgIFVuZm9ydHVu
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dSBoYWQgc29tZSBpZGVhcyBmb3IgbWUuLgo+IGdyZWV0aW5ncwo+IG1hcmlhbmEK

Re: [xmds-user] Question about xmds

[Joseph H. <jos...@an...>]

Hi Rom,

Both of your desires are basic features of XMDS.

To do a Poincare section, you only need to sample the system =20
periodically, and you don't need to break the <integrate> block to do =20=

this - it's the basic design of the output system.  The <samples> =20
element in the <integrate> element tells it how many samples to do =20
during that period of integration.  You can do more fancy things with =20=

the <cycles> option, but I don't think you need to.

>> Is it also possible to get the value of $X(t_0)$ for a given time =20
>> $t_0$ and
>> put it in the output ?

This is the main point of the output system.  I recommend you read =20
through the worked example in the documentation.  (Chapter 9, p123 of =20=

the PDF)

Joe



On 04/12/2006, at 9:19 AM, Paul Cochrane wrote:

> Hi Rom,
>
>> I am a student and I have a question about xmds : I'd like to =20
>> compute the
>> Poincar=E9 section of a dynamical system X'=3Df(X). To do so, I'd =
like =20
>> to put a
>> break in the section <integrate> is it possible ?
> Unfortunately, I don't know the answer to this question, hence I've
> bounced your message to the xmd...@li... mailing
> list, and there are lots of nice people there who will be able to
> answer your question :-)
>
>> Is it also possible to get the value of $X(t_0)$ for a given time =20
>> $t_0$ and
>> put it in the output ?
> I'm pretty sure you can, although, off the top of my head I don't know
> the answer.  I've not worked on xmds for a couple of years or so now,
> so am somewhat "out of the loop" as far as what one could do with it.
> However, someone on the mailing list will be able to answer this
> question better than I!
>
> Good luck with xmds!
>
> Paul
> ----------------------------------------------------------------------=20=

> ---
> Take Surveys. Earn Cash. Influence the Future of IT
> Join SourceForge.net's Techsay panel and you'll get the chance to =20
> share your
> opinions on IT & business topics through brief surveys - and earn cash
> http://www.techsay.com/default.php?=20
> page=3Djoin.php&p=3Dsourceforge&CID=3DDEVDEV
> _______________________________________________
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> xmd...@li...
> https://lists.sourceforge.net/lists/listinfo/xmds-user

Re: [xmds-user] Question about xmds

[Paul C. <pau...@gm...>]

SGkgUm9tLAoKPiBJIGFtIGEgc3R1ZGVudCBhbmQgSSBoYXZlIGEgcXVlc3Rpb24gYWJvdXQgeG1k
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aG8gd2lsbCBiZSBhYmxlIHRvCmFuc3dlciB5b3VyIHF1ZXN0aW9uIDotKQoKPiBJcyBpdCBhbHNv
IHBvc3NpYmxlIHRvIGdldCB0aGUgdmFsdWUgb2YgJFgodF8wKSQgZm9yIGEgZ2l2ZW4gdGltZSAk
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Y2sgd2l0aCB4bWRzIQoKUGF1bAo=

[xmds-user] Fwd: Question about xmds

[Paul C. <pau...@gm...>]

LS0tLS0tLS0tLSBGb3J3YXJkZWQgbWVzc2FnZSAtLS0tLS0tLS0tCkZyb206IHZlbHR6IHJvbWFp
biA8cm9tdmVnZXRhQHlhaG9vLmZyPgpEYXRlOiBEZWMgMiwgMjAwNiA5OjE4IFBNClN1YmplY3Q6
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bGlrZSB0byBjb21wdXRlCnRoZSBQb2luY2Fyw6kgc2VjdGlvbiBvZiBhIGR5bmFtaWNhbCBzeXN0
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RMOpY291dnJleiBsZSBub3V2ZWF1IFlhaG9vISBNYWlsIGV0CnNvbiBpbnRlcmZhY2UgcsOpdm9s
dXRpb25uYWlyZS4K

Re: [xmds-user] XMDS and coupled PDEs

[Roger Y. <r....@ir...>]

On Fri, 1 Dec 2006 13:59:28 +1100
Joseph Hope <jos...@an...> wrote:

> Roger,
> 
> This kind of equation can be solved by XMDS under some
> assumptions, but it's not the natural system to model, because it
> mixes ODEs and PDEs.  A simple workaround, which won't be as fast
> as more adapted methods, would be to treat the ODEs as trivial
> components of the PDEs.
> 
> What are the boundary conditions for the PDEs?
> 
> Joe

Thanks Joe for your speedy answer. I have joined the list
so will forward this email there. The bc's for the pde
(wave eqn) are

u(0,t) = u2(t)
u_x(L,t) = 0   for u(L,t)<g    

If u(L,t).ge.g (the gap) then find t* such that u(L,t*)=g. Then reset
velocity field at x=L so that v(L,t*+)= -e*v(L,t*-)
where e is a coefficient of restitution.

Also u2(t) satisfies:  m2*u2_tt + k2*u2 + ... = F(t) - S(t)
where F(t) is a known driving term, but S(t) must be obtained from

S(t)/A = E*u_x(0,t)

so the ode's and the pde are coupled in both directions
(A is an area, E is Young's modulus). As mentioned it is
not too difficult to solve the ode system together with the
impact constraint. But the extension ode-->pde looks more difficult...

Chers,
Roger.

................................................................................................................................
 


> 
> 
> > Bouncing this message to the list, people there are better equipped to
> > answer the question.
> >
> > Paul
> >
> > ---------- Forwarded message ----------
> > From: Roger Young <r....@ir...>
> > Date: Dec 1, 2006 2:39 AM
> > Subject: Possible XmdS application to impact dynamics problem?
> > To: coc...@ph...
> > Cc: r....@ir...
> >
> >
> > Dear Dr. Cochrane,
> >
> > I found your contact email address on the XmdS website.
> > I wonder whether XmdS could solve a system of coupled
> > pde's which include impact collisions? The motion is forced
> > at one point in the system. The distributed
> > component is modelled as a 1D wave equation for a beam.
> > The other components are ode's ie masses (rigid bodies) attached to  
> > the
> > beam (and to each other) and controlled with springs, dampers etc.  
> > The beam
> > can impact non-elastically on a rigid boundary. There are also
> > intermittent elastic collisions between two of the point masses.
> > The motion is likely to be chaotic intially, but may eventually settle
> > down to a regular sequence of impacts in resonance with the periodic
> > driving force.
> >
> > I know how to solve this problem if it is non-distributed (all ode's).
> > But the presence of the pde makes it rather difficult.
> >
> > Does this look a feasible problem for XmdS? If not, do you have any
> > suggestions for solving the problem?
> >
> > Regards,
> > Roger Young
> >
> > *-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*- 
> > *-*-*-*-*-*
> > Dr. Roger Young
> > Industrial Research Ltd             Telephone: 64-4-5690-247
> > Applied Mathematics                 Fax:       64-4-5690-003
> > P O Box 31-310, Lower Hutt          Internet:  R....@ir...
> > New Zealand.
> > *-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*- 
> > *-*-*-*-*-*
> >
> > This message has been scanned for viruses and dangerous content by
> > MailScanner, and is believed to be clean.
> >
> > ---------------------------------------------------------------------- 
> > ---
> > Take Surveys. Earn Cash. Influence the Future of IT
> > Join SourceForge.net's Techsay panel and you'll get the chance to  
> > share your
> > opinions on IT & business topics through brief surveys - and earn cash
> > http://www.techsay.com/default.php? 
> > page=join.php&p=sourceforge&CID=DEVDEV
> > _______________________________________________
> > xmds-user mailing list
> > xmd...@li...
> > https://lists.sourceforge.net/lists/listinfo/xmds-user
> 
> Dr. Joseph Hope
> jos...@an...
> Dept. of Physics, Faculty of Science,
> Building 38a,
> Australian National University,
> Canberra, ACT 0200, AUSTRALIA
> 
> Phone: +61 2 6125 2780, Fax: +61 2 6125 0741
> The Australian National University:  CRICOS 00120C
> 
> I can't understand why people are frightened of new ideas. I'm  
> frightened of the old ones. -- John Cage
> 
> 
> 
> 
> 
> This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean.
> 
> 


-- 
*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*
Dr. Roger Young
Industrial Research Ltd             Telephone: 64-4-5690-247
Applied Mathematics                 Fax:       64-4-5690-003        
P O Box 31-310, Lower Hutt	    Internet:  R....@ir...
New Zealand.                       
*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*

This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean.

Re: [xmds-user] Possible XmdS application to impact dynamics problem?

[Paul C. <pau...@gm...>]

Roger,

> I know how to solve this problem if it is non-distributed (all ode's).
> But the presence of the pde makes it rather difficult.
>
> Does this look a feasible problem for XmdS? If not, do you have any
> suggestions for solving the problem?
I believe xmds would be a good solution to this problem, however, I'm
not 100% sure, hence, I bounced your message to the
xmd...@li... mailing list, and people there will be
able answer your question more fully than me (I was the developer
once, but didn't use it as such very much).

Good luck with solving your problem!

Paul

[xmds-user] Fwd: Possible XmdS application to impact dynamics problem?

[Paul C. <pau...@gm...>]

Bouncing this message to the list, people there are better equipped to
answer the question.

Paul

---------- Forwarded message ----------
From: Roger Young <r....@ir...>
Date: Dec 1, 2006 2:39 AM
Subject: Possible XmdS application to impact dynamics problem?
To: coc...@ph...
Cc: r....@ir...


Dear Dr. Cochrane,

I found your contact email address on the XmdS website.
I wonder whether XmdS could solve a system of coupled
pde's which include impact collisions? The motion is forced
at one point in the system. The distributed
component is modelled as a 1D wave equation for a beam.
The other components are ode's ie masses (rigid bodies) attached to the
beam (and to each other) and controlled with springs, dampers etc. The beam
can impact non-elastically on a rigid boundary. There are also
intermittent elastic collisions between two of the point masses.
The motion is likely to be chaotic intially, but may eventually settle
down to a regular sequence of impacts in resonance with the periodic
driving force.

I know how to solve this problem if it is non-distributed (all ode's).
But the presence of the pde makes it rather difficult.

Does this look a feasible problem for XmdS? If not, do you have any
suggestions for solving the problem?

Regards,
Roger Young

*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*
Dr. Roger Young
Industrial Research Ltd             Telephone: 64-4-5690-247
Applied Mathematics                 Fax:       64-4-5690-003
P O Box 31-310, Lower Hutt          Internet:  R....@ir...
New Zealand.
*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*

This message has been scanned for viruses and dangerous content by
MailScanner, and is believed to be clean.

Re: [xmds-user] lorenzInput.dat

[Graham D. <gra...@an...>]

One thing I forgot to mention, if you do comment the <filename> tag, =20
you will need to uncomment the following <![CDATA[ section.

Graham

On 05/10/2006, at 11:08 AM, Graham Dennis wrote:

> Hi,
> The default file format for input files (that is, when the <filename>
> tag doesn't have a format=3D"" attribute) is ascii. For these files,
> the format is defined in section 2.6 of the documentation which
> basically boils down to a space or newline separated list of numbers
> (in a text-file). For the lorenz.xmds input file, we need to set the
> values for three variables, so an example input file could be:
> 1.0 1.0 1.0
>
> Alternatively, you can remove the line <filename> lorenzInput.dat </
> filename> from the xmds script and just pass the values to the
> program at run time (if you don't like the defaults of x=3D1.0, y=3D1.0,=

> z=3D1.0). To see what arguments to pass you can just type (after
> compiling the script):
> $ ./lorenz --help
> Usage: lorenz -x < double > -y < double > -z < double >
>
> Details:
> Option          Type            Default value
> -x, --xo        double          1.0
> -y, --yo        double          1.0
> -z, --zo        double          1.0
>
> So running ./lorenz -x 2.0 -y 3.2 -z 1e-5 would work, as would ./
> lorenz --xo 2.0 --yo 3.2 --zo 1e-5
>
> Hope that helps. I have commented out the <filename> tag for the
> lorenz xmds script in CVS.
>
> Graham
>
>
> On 03/10/2006, at 8:52 PM, Sylvain Barbay wrote:
>
>> I don't know what is expected in this file in the lorenz.xmds =20
>> example.
>> I could not find any clue in the doc.
>>
>> Can anyone help here ?
>>
>> Thanks in advance,
>>
>> Sylvain.
>>
>> --=20
>> Sylvain Barbay
>> Charg=E9 de Recherche
>> Laboratoire de Photonique et de Nanostructures -- CNRS/UPR20
>> Route de Nozay, 91460 Marcoussis, France
>> Tel : +33 (0)1 69 63 62 00, Fax : +33 (0)1 69 63 60 06
>> http://www.lpn.cnrs.fr
>>
>>
>> ---------------------------------------------------------------------=20=

>> -
>> ---
>> Take Surveys. Earn Cash. Influence the Future of IT
>> Join SourceForge.net's Techsay panel and you'll get the chance to
>> share your
>> opinions on IT & business topics through brief surveys -- and earn
>> cash
>> http://www.techsay.com/default.php?
>> page=3Djoin.php&p=3Dsourceforge&CID=3DDEVDEV
>> _______________________________________________
>> xmds-user mailing list
>> xmd...@li...
>> https://lists.sourceforge.net/lists/listinfo/xmds-user
>
>
> ----------------------------------------------------------------------=20=

> ---
> Take Surveys. Earn Cash. Influence the Future of IT
> Join SourceForge.net's Techsay panel and you'll get the chance to =20
> share your
> opinions on IT & business topics through brief surveys -- and earn =20
> cash
> http://www.techsay.com/default.php?=20
> page=3Djoin.php&p=3Dsourceforge&CID=3DDEVDEV
> _______________________________________________
> xmds-user mailing list
> xmd...@li...
> https://lists.sourceforge.net/lists/listinfo/xmds-user

Re: [xmds-user] lorenzInput.dat

[Graham D. <gra...@an...>]

Hi,
The default file format for input files (that is, when the <filename> =20=

tag doesn't have a format=3D"" attribute) is ascii. For these files, =20
the format is defined in section 2.6 of the documentation which =20
basically boils down to a space or newline separated list of numbers =20
(in a text-file). For the lorenz.xmds input file, we need to set the =20
values for three variables, so an example input file could be:
1.0 1.0 1.0

Alternatively, you can remove the line <filename> lorenzInput.dat </=20
filename> from the xmds script and just pass the values to the =20
program at run time (if you don't like the defaults of x=3D1.0, y=3D1.0, =
=20
z=3D1.0). To see what arguments to pass you can just type (after =20
compiling the script):
$ ./lorenz --help
Usage: lorenz -x < double > -y < double > -z < double >

Details:
Option          Type            Default value
-x, --xo        double          1.0
-y, --yo        double          1.0
-z, --zo        double          1.0

So running ./lorenz -x 2.0 -y 3.2 -z 1e-5 would work, as would ./=20
lorenz --xo 2.0 --yo 3.2 --zo 1e-5

Hope that helps. I have commented out the <filename> tag for the =20
lorenz xmds script in CVS.

Graham


On 03/10/2006, at 8:52 PM, Sylvain Barbay wrote:

> I don't know what is expected in this file in the lorenz.xmds example.
> I could not find any clue in the doc.
>
> Can anyone help here ?
>
> Thanks in advance,
>
> Sylvain.
>
> --=20
> Sylvain Barbay
> Charg=E9 de Recherche
> Laboratoire de Photonique et de Nanostructures -- CNRS/UPR20
> Route de Nozay, 91460 Marcoussis, France
> Tel : +33 (0)1 69 63 62 00, Fax : +33 (0)1 69 63 60 06
> http://www.lpn.cnrs.fr
>
>
> ----------------------------------------------------------------------=20=

> ---
> Take Surveys. Earn Cash. Influence the Future of IT
> Join SourceForge.net's Techsay panel and you'll get the chance to =20
> share your
> opinions on IT & business topics through brief surveys -- and earn =20
> cash
> http://www.techsay.com/default.php?=20
> page=3Djoin.php&p=3Dsourceforge&CID=3DDEVDEV
> _______________________________________________
> xmds-user mailing list
> xmd...@li...
> https://lists.sourceforge.net/lists/listinfo/xmds-user

[xmds-user] lorenzInput.dat

[Sylvain B. <syl...@lp...>]

I don't know what is expected in this file in the lorenz.xmds example.
I could not find any clue in the doc.

Can anyone help here ?

Thanks in advance,

Sylvain.

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Sylvain Barbay
Charg=E9 de Recherche
Laboratoire de Photonique et de Nanostructures -- CNRS/UPR20
Route de Nozay, 91460 Marcoussis, France
Tel : +33 (0)1 69 63 62 00, Fax : +33 (0)1 69 63 60 06
http://www.lpn.cnrs.fr