APBS is a software package for the numerical solution of the Poisson-Boltzmann equation (PBE), one of the most popular continuum models for describing electrostatic interactions between molecular solutes in salty, aqueous media. Continuum electrostatics plays an important role in several areas of biomolecular simulation, including simulation of diffusional processes to determine ligand-protein and protein-protein binding kinetics, implicit solvent molecular dynamics of biomolecules, solvation and binding energy calculations to determine ligand-protein and protein-protein equilibrium binding constants and aid in rational drug design, and biomolecular titration studies.
PDB2PQR is a Python software package that automates many of the common tasks of preparing structures for continuum electrostatics calculations, providing a platform-independent utility for converting protein files in PDB format to PQR format. These tasks include adding a limited number of missing heavy atoms to biomolecular structures, determining side-chain pKas, placing missing hydrogens, optimizing the protein for favorable hydrogen bonding, assigning charge and radius parameters from a variety of force fields.
ngIRCd is a portable IRC daemon written from scratch. It is easy to configure, supports server links (even with original ircds) and runs on hosts with changing IP addresses (such as dial-in networks). Currently supported platforms are AIX, A/UX, Darwin/Mac OS X, FreeBSD, HP-UX, IRIX, Linux, NetBSD, SunOS/Solaris, and Windows with Cygwin.
Tux Strikes Back is a level set (new world) for SuperTux 0.1.3, the popular open source jump'n run game which is available for many different platforms. This set comes with 18 new levels and its own world map and story. An installation of SuperTux 0.1.3 (Milestone 1) is required.
Trojan Scan is a simple shell script that allows for simple but relatively effective checking for trojans, rootkits and other malware that may be using your server and network for unwanted (and possibly illegal) purposes. It is relatively simple and won't catch them all, but can help to find these programs on shared servers with many users. It works by listing all process that use the Internet with the lsof command (using -Pni flags). This list is then transformed into signatures, which are then are matched against the allowed process defined in the configuration. If any signatures of running processes are found that do not match the allowed signatures, an email report is sent including ps, ls, and optional lsof output for the unknown processes.
MiGLayout is a versatile and flexible Swing and SWT layout manager. It uses string constraints or API type-checked constraints to format the layout. Strings are both short to type and easy to understand. MiGLayout can produce flowing, grid-based, absolute (with links), grouped, and docking layouts. It was created to be to manually coded layouts what Matisse/GroupLayout is to IDE-supported visual layouts.
FusionCharts Free is a flash charting component that can be used to render data-driven and animated charts for your Web applications and presentations. It is a cross-browser and cross-platform solution that can be used with ASP.NET, ASP, PHP, JSP, ColdFusion, Ruby on Rails, simple HTML pages, or even PowerPoint presentations to deliver interactive and powerful flash charts. You do not need to know anything about Flash to use FusionCharts. All you need to know is the language in which you're programming.
The PrecisionID 2 of 5 Interleaved Barcode Font package contains 6 sizes of TrueType and PostScript fonts, each supplied in normal and text readable format. The package also contains complete documentation, specifications, PrecisionID Font Formatting Components, and implementation examples for Microsoft Excel, Microsoft Access, and Crystal Reports. This barcode type is also known as ITF and Interleaved 2 of 5.