dchandran / copasi-simple-api Goto Github PK

I added an example in the docs to this method:

int cSetAssignmentRule(copasi_model model, const char * species, const char * 
formula);

Not sure if the example is correct, can you check. Not sure what formula should 
be, eg S1 = sin (time*k1), sin (time*k1)?

Also am I allowed to use the variable 'time'?

The link to the defines page is broken, see

http://copasi-simple-api.googlecode.com/svn/trunk/documentation/html/globals.htm
l

and look for All Functions Defines buttons

Generate 32 bit debug binaries

Fix broken link on project home page:

Windows binaries (with Debug symbols)

All the hyper links on page:

http://copasi-simple-api.googlecode.com/svn/trunk/documentation/html/_t_c__struc
ts_8h_source.html

are broken.

The links to TC_structs.c and TC_structs.h are broken on page:

http://copasi-simple-api.googlecode.com/svn/trunk/documentation/html/files.html

There is a method called cReadAntimonyFile but no method cReadAntimonyString. 
Both methods are available for SBML. For completeness
there should be a sReadAntimonyFile.

I noted that the error messages returned by cReadSBML include both warnings and 
real errors. Does Copasi distinguish between the two or must we parse the text 
that is returned to determine what is a warning and what is an error?

What steps will reproduce the problem?
1. none. I don't understand how to use that code.
2.
3.

What is the expected output? What do you see instead?
Can I write a model such as the 
"antimony/doc/examples/biomodels/BIOMD0000000100.txt" ?
How can I upload a model like this one in copasi ?

What version of the product are you using? On what operating system?
copasi-simple-api Linux 12.04

Please provide any additional information below.

The documentation has an example for the cCreateEvent, check that the example 
is correct.

The help comment on 

cSetConcentration cSetConcentration(copasi_model, const char * species, double 
value);

states that the argument, 'value' can be concentration or count. What 
determines what it actually is?

Generate 64 bit debug and non-debug binaries

I think we should change the name of cSetBoundarySpecies to the more generic 
name, cSetSpeciesType. When I saw the method name, cSetBoundarySpecies I 
thought that's what it did but it will in fact also convert a boundary species 
to a floating species, I assume I am correct in this?

Hi,

I'm a new user and had difficulties with the project home page (I think it is 
not updated). 
First the example is not available (but I found biomodels in anamotony folder).
Then, I'm on Linux and while I'm doing the last step (just after the "generate" 
one) I can't "make copasi_api_test". In fact, I read the README and type make 
in the BUILD folder. I hope it is correct ^^

It is just a remark about what is written on this page but I had no real 
problems for the moment.

Fanny P.

Documentation for tc_struct.h needs to be generated

There needs to be some documentation on the main page of the doxygen 
documentation.

The matrices returned by the MCA calls need documentation on what the rows and 
columns are.

For methods such as cGetConcentrations which return a vector, how do we know 
which element corresponds to which species?