Open Source Fortran Simulation Software - Page 2

The collection MICROMECHANICS (micromechanics.zip) includes: (1) lecture notes (microbook.pdf) on the analysis of heterogeneous materials and homogenization, and (2) source codes (microcode.tar.bz2) that accompany the computational exercises in Part II of the notes. Instructions on using the codes are given in the README file of each exercise. Further instructions can be found in the file microcode.tar.bz2. The MATLAB codes are used for visualization, evaluating analytical bounds and estimates as well as in the generation of digital and particulate microstructures. The Fortran codes are based on the finite element method in linear and nonlinear settings, the latter capable of finite deformations with damage. The underlying theory is outlined in the lecture notes. -- İlker Temizer Assistant Professor Department of Mechanical Engineering Bilkent University 06800 Bilkent, Ankara Turkey

Development of new data assimilation techniques for ocean models

http://loto.sourceforge.net/ hosts 4 projects of free software related to materials science and physics. They are loto, feram, compasses and xtalgrowth.

A 2-D inviscid flow and adjoint solver on unstructured triangular grids. It makes use of a vertex-centroid finite volume scheme which is second order accurate. The adjoint solver is developed using the automatic differentiation tool called TAPENADE. Code has been moved to https://github.com/cpraveen/euler2d

CFD code using Arbitrary Lagrangian Eulerian algorithm.

Atomistic NanoTransport (ANT) comprises a series of codes designed to compute electronic quantum transport with a broad range of applicability in nanoelectronics. ANT.Gaussian (or ANT.G for brevity) relies on the popular quantum chemistry code GAUSSIAN03/09 code with which interfaces in a seamless manner. Straightforwad use of ANT.G include the computation of the zero-bias conductance (or, alternatively, the electrical current under an applied bias voltage) of a variety of nanoscale systems such as molecular bridges or simply metallic atomic contacts as those created with scanning tunneling microscope or break junction techniques. The use of ANT.G may also be naturally extended to the computation of scanning tunneling spectroscopy and the simulation of scanning tunneling and electrostatic force microscopy.

This software has moved to http://www.poissonboltzmann.org/.

Ani2D provides portable libraries for each step in the numerical solution of systems of PDEs with variable tensorial coefficients: (1) unstructured adaptive mesh generation, (2) metric-based mesh adaptation, (3) finite element discretization and interpolation, (4) algebraic solvers.

is a molecular viewer & model builder for quantum chemistry programs. It has an interface with NWChem, CP2K and PC GAMESS/Firefly quantum programs. http://www.biomolecular-modeling.com/Products.html

Blit contains a group of highly efficient iterative sparse solvers that can handle multiple right-hand-sides (i.e. block solvers). We will implement BLQMR, BLGMRES and other block algorithms in MATLAB, FORTRAN 90, C/C++, CUDA and OpenCL.

BrennerMD is a public domain Fortran molecular dynamics program by Donald Brenner and other people. This project is to maintain the original source code and to build a Python interface on top of it.

ByoDyn (http://cbbl.imim.es/ByoDyn) is a software tool for the study of biochemical networks within the framework of systems biology. SBML compatible, ByoDyn is a group effort of the Computational Biochemistry and Biophysics Lab.

CASUP is a Cellular Automata (CA) library for HPC and supercomputers. It can be used in materials science (microstructure evolution, grain coarsening, fracture etc.), physics (Ising magnetisation) and for many other CA. If you use the library, please reference it as: A. Shterenlikht, L. Margetts, Three-dimensional cellular automata modelling of cleavage propagation across crystal boundaries in polycrystalline microstructures, Proc. Roy. Soc. A 471:20150039, DOI: http://dx.doi.org/10.1098/rspa.2015.0039. CASUP can be linked with FE (e.g. MPI FE library ParaFEM, http://parafem.org.uk) for a multi-scale multi-physics CA-FE framework. CASUP extensively uses Fortran 2008 and 2018 coarrays, as well as MPI, OpenMP and do concurrent. CASUP can be used with Cray, Intel and GCC/OpenCoarrays compilers. Scaling beyond 100,000 cores on Cray XC30 was demonstrated.

CFDtools is a set of libraries to manage data format for CFD (mesh/grid and flow data). It provides additional tools for development of simulations softwares.

Problem Solving Environment (PSE) for Data Assimilation and Model Calibration

RPM files of CalculiX, a free FEM package. See www.dhondt.de for the non-rpm base packages (cgx, ccx)

The goal of this project is to provide a couple of Fortran code to those students who selected the course of "Climate Modeling" in the department of atmospheric and oceanic sciences at Peking University. 这个项目的目标是给选择“气候模拟”课程（北京大学大气与海洋科学系）的同学提供与课程学习有关的源代码程序。 We are subject to GNU/GPL license and happy to open the code to the public. 我们遵守GNU/GPL协议，并乐于开放代码给所有需要的人。

DBSolveOptimum is a stand-alone software tool for the construction and analysis of mathematical models of biological systems. It is a succession and extension of DBSolve 5 and DBSolve 7, which were popular tools for systems biology. In addition to the capabilities of these software packages, DBSolveOptimum is implemented with new tools for extended data analysis and multiple simulations, which are important for simulation of virtual clinical trials and application of modern modeling techniques, like quantitative systems pharmacology, to problems arising in drug research and development. By this time, DBSolveOptimum has been successfully tested and applied for the development and analysis of both systems pharmacology and conventional PK/PD models of drugs. It is free for academic and industrial use. http://www.ncbi.nlm.nih.gov/pubmed/20698988

ETFOMM (Enhanced Transportation Flow Open-source-simulation Microscopic Model) is sponsored by a US DOT SBIR Program. The objective of the project is to establish a transportation flow simulation software program and its Application Program Interface. ETFOMM can be used as a DLL as a substitute for CORSIM in the TSIS package. It is compatible with TRAFED and TRAFVU. ETFOMM can also be used as a separate executable from a Windows or Linux command line. ETFOMM may also be linked into another application using the provided Application Programming Interface (API). TRAFVU and TRAFED are trademarks of ITT Industries, Inc., Systems Division.

Eiger is an electromagnetic software for frequency domain analysis. It consists of physics models for 2D and 3D electromagnetic scattering, radiation, and penetration problems. It contains Green's functions for periodic and layer medium.

Famms is a Python module for applying the method of manufactured solutions (MMS) to PDE simulators written in C/C++, Fortran, and Python.

This Monte Carlo simulation tool calculates multiple scattering down at particle level by small spherical objects and infinitely long cylinders.

Set of scripts based on gaussian optics, which allow you to analyze the image waist created from a gaussian beam, and quickly determine 1-lens and 2-lens mode matching configurations to match a beam waist to another waist size