Commandline options

--SBMLSchema

This switch works in combination with the --exportSBML switch and determines which SBML level and version is going to be used for SBML export. Currently the following schemas are supported L1V2 for SBML Level 1 Version 2, L2V1 for SBML Level 2 Version 1, L2V2 for SBML Level 2 Version 2 and L2V3 for SBML Level 2 Version 3.

If no schema is given, the exported creates SBML Level 2 Version 3 files.

--home

This can be used to tell COPASI where your home directory is located. Normally you don't have to use this.

--configdir

This can be used to specify the directory where COPASI stores its configuration files. Normally this is called .copasi and is located in the users home directory. But if you want COPASI to use a different one, you can specify it with this switch.

--configfile

This can be used to specify the filename where COPASI loads and stores its configuration. Normally this is called COPASI and is located in the directory specified with --configdir. But if you want COPASI to use a different filename, you can specify it with this switch.

-c, --copasidir

This specifies the directory where COPASI has been installed. It is needed to find e.g. help files. On Windows and Mac OS X this is set automatically. On Linux it has to be specified if you want to use certain features. The GUI version of COPASI will issue a warning on startup if this has not been set. The commandline version does not need this directory to be specified and therefore ignores this option.

--exportBerkeleyMadonna

With this option you can specify a name for the Berkeley Madonna file COPASI should export. This is useful if you want to export some COPASI files to Berkeley Madonna file format in a batch job. This only makes sense for the commandline version and it will be ignored by the GUI version.

--exportC

With this option you can specify a name for the C source file COPASI should export. This is useful if you want to export some COPASI files to C source code in a batch job. This only makes sense for the commandline version and it will be ignored by the GUI version.

-e, --exportSBML

With this option you can specify a name for the SBML file COPASI should export. This is useful if you want to export some COPASI files to SBML in a batch job. This only makes sense for the commandline version and it will be ignored by the GUI version.

--exportXPPAUT

With this option you can specify a name for the XPPAUT file COPASI should export. This is useful if you want to export some COPASI files to XPPAUTs ODE file format in a batch job. This only makes sense for the commandline version and it will be ignored by the GUI version.

--license

With this commandline option, COPASI will print its license and exit.

-i, --importSBML

This options lets you specify an SBML file that COPASI shall import.

-s, --save

This option is used to specify the name file where COPASI should store a model. This is useful if you intend to convert some SBML files to COPASI files in a batch job. This also makes sense only for the commandline version and will be ignored by the GUI version.

-t, --tmp

This option can be used to specify a temporary directory where COPASI will auto-save some data periodically. Normally COPASI uses the systems temporary directory (e.g. /tmp/ under Linux).

--verbose

This commandline option tells COPASI to print more output on what it is doing to std::out.

--nologo

This option suppresses the output of the "Logo" when CopasiSE is run. The "Logo" usually consist of the version of COPASI and some license statement.

--validate

This commandline version can be used to validate the given file. The file can either be a COPASI file or an SBML file.