Metadata-Version: 2.1
Name: amici
Version: 0.6a7
Summary: Advanced multi-language Interface to CVODES and IDAS
Home-page: https://github.com/ICB-DCM/AMICI
Author: Fabian Froehlich, Jan Hasenauer, Daniel Weindl and Paul Stapor
Author-email: fabian.froehlich@helmholtz-muenchen.de
License: BSD
Description: About AMICI
        ==========
        
        AMICI provides a multilanguage interface for the SUNDIALS solvers CVODES (for ordinary differential equations) and IDAS (for algebraic differential equations). AMICI allows the user to read differential equation models specified as SBML and automatically compiles such models as .mex simulation fiels, c++ executables and python modules. In contrast to the SUNDIALSTB interface, all necessary functions are transformed into native C++ code, which allows for a significantly faster simulation. Beyond forward integration, the compiled simulation file also allows for forward sensitivity analysis, steady state sensitivity analysis and adjoint sensitivity analysis for likelihood based output functions.
        
        The interface was designed to provide routines for efficient gradient computation in parameter estimation of biochemical reaction models but is also applicable to a wider range of differential equation constrained optimization problems.
        
        Current build status
        ====================
        
        Linux/Mac: [![TravisCI](https://travis-ci.org/ICB-DCM/AMICI.svg?branch=master)](https://travis-ci.org/ICB-DCM/AMICI)
        Coverage: [![Coverage Status](https://coveralls.io/repos/github/ICB-DCM/AMICI/badge.svg?branch=master)](https://coveralls.io/github/ICB-DCM/AMICI?branch=master)
        
        FAQ
        ===
        
        Q: My model fails to build.
        
        A: Remove the corresponding model directory located in AMICI/models/*yourmodelname* and compile again.
        
        ---
        
        Q: It still does not compile.
        
        A: Make an [issue](https://github.com/ICB-DCM/AMICI/issues) and we will have a look.
        
        ---
        
        Q: I get an out of memory error while compiling my model on a Windows machine.
        
        A: This may be due to an old compiler version. See [issue #161](https://github.com/ICB-DCM/AMICI/issues/161) for instructions on how to install a new compiler.
        
        ---
        
        Q: The simulation/sensitivities I get are incorrect.
        
        A: There are some known issues, especially with adjoint sensitivities, events and DAEs. If your particular problem is not featured in the [issues](https://github.com/ICB-DCM/AMICI/issues) list, please add it!
        
         
        
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: BSD License
Classifier: Operating System :: POSIX :: Linux
Classifier: Operating System :: MacOS :: MacOS X
Classifier: Programming Language :: Python
Classifier: Programming Language :: C++
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Requires-Python: >=3
Description-Content-Type: text/markdown
