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README.md

What is cosmomathica?

Wolfram Mathematica is a powerful and convenient software package used by many cosmologists everywhere. However, since it is not always the most efficient for low-level computing, most popular algorithms for numerical computations in cosmology have been written in C or Fortran, since these languages are typically much better suited for the task at hand. This package bundles the functionality of some of these algorithms in a Mathematica package, which makes them easier to use and avoids the need to learn C or Fortran.

It makes use of the MathLink technology, which means that the original source code remains untouched. The algorithms are not reimplemented either, because that would negate the advantage of having them implemented in a lower level language in terms of efficiency. On top of that, it would inevitably introduce new bugs given the complexity of these algorithms.

For further details on how MathLink works, see http://arxiv.org/abs/1107.4379.

Requirements

  • Wolfram Mathematica version >=10

  • The GNU Compiler Compilation (gcc) and (gfortran) version >=4.6

  • GSL (GNU Scientific Library) You need the developer libraries for GSL (gsl-bin, libgsl-dev)

  • Universally Unique ID library (uuid-dev) and (libuuid1)

  • Note: Library names could depend on your operating-system. Check compiler errors for the needed libraries.

External programs

Cosmomathica interfaces with the Transfer Function code from Eisenstein&Hu, halofit from Robert Smith et al and Martin Kilbinger, CosmicEmulator and FrankenEmulator from Kathrin Heitmann et al, CAMB from Anthony Lewis et al and CLASS from Julien Lesgourges et al.

Due to copyright issues, the external packages cannot be delivered as part of this package.

Cosmomathica downloads all these codes for you. Just go to the folder ext/ and type: make download Then follow the user prompts.

The Transfer Function code will be placed in a folder named tf, Halofit will be placed in a folder named halofit and the CosmicEmulator and FrankenEmulator will be placed in folders named CosmicEmulator and FrankenEmu, respectively. CLASS and CMAB will be cloned from their git repositories and placed in folders named class and camb.

If you use a modified version of CAMB or CLASS, cosmomathica might stil work. In general, if you modify things like the type CAMBparams, you almost certainly will have to modify cosmomathica as well. See the camb_wrapper.f90 and the class_wrapper.c under ext/.

How to compile the MathLink

The paths to the required Mathematica libraries are often different on every system, so first you should adjust the Mathematica-related lines in the Makefile_mathlink file, which is located in the ext directory.

This line: MLINKDIR = /usr/local/Wolfram/Mathematica/11.2/SystemFiles/Links/MathLink/DeveloperKit has to be adapted to your file system.

First, if you haven't, change to the directory ext/ and type: make download. Follow the user prompts to download the external packages.

As a second step, compile all codes and the mathlink by typing make inside the ext/ directory. Preferibly type make clean before, if you have previously compiled one of the cosmological codes.

CAMB uses the Intel Fortran compiler by default. Due to compatibility issues with linking the different object files, CAMB needs to be compiled with GNU gfortran. Please make sure that CAMB inside the folder camb is compiled with gfortran, by changing the respective Makefile.

Note that all warnings and errors that you see may be cause by the external programs. Make sure the warning is not from compiling the MathLink and contact the respective authors if you have concerns. Otherwise, feel free to file a bug report on GitHub.

How to use Cosmomathica

In general, each one of the functions CAMB, Transfer, Halofit, Class and FrankenEmu returns lists containing the raw data as computed by the respective program.

See the notebook demo.nb for a demonstration.

Version

This is version 1.0.

Version 1.0: Release by Santiago Casas

Previous versions: Forked from Adrian Vollmer's original cosmomathica.

Copyright and licensing

Cosmomathica is released under the GPL2. Contributions are welcome. Note that the copyright of the external software packages belong to their respective owners. Read their copyright remarks before using them.

**Sources of external packages: **

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A Mathematica package to interact with other programs commonly used in cosmology

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