Biber is a sophisticated bibliography processing backend for the LaTeX biblatex package. It supports a unsurpassed feature set for automated conformance to complex bibliography style requirements such as labelling, sorting and name handling. It has comprehensive Unicode support.
cloc (Count Lines Of Code) counts, and computes differences of, comment lines, blank lines, and physical lines of source code in many programming languages. cloc is now being developed at https://github.com/AlDanial/cloc
Design PCR primers from DNA sequence. Widely used (190k Google hits for "primer3"). From mispriming libraries to sequence quality data to the generation of internal oligos, primer3 does it. C&perl. Developers/testers/documenters needed.
UrJTAG aims to create an enhanced, modern tool for communicating over JTAG with flash chips, CPUs, and many more. It is a descendant of the popular openwince JTAG tools with a lot of additional features and enhancements.
The Sashimi project hosts the Trans-Proteomic Pipeline (TPP), a mature suite of tools for mass-spec (MS, MS/MS) based proteomics: statistical validation, quantitation, visualization, and converters from raw MS data to the open mzML/mzXML formats.
SpamAssassin for Win32 is a free and powerful anti-spam filter for Windows. Includes a resident daemon for mail servers and a user-friendly personal spam filter that works with any POP3 account and any email client.
EPSILON is a powerful Open Source wavelet image compressor. The project is aimed on parallel and robust image processing.
FireEgl's PuTTY -- FuTTY!
FuTTY is a fork of PuTTY and PuTTYTray.
A multi-purpose extensible self-adaptive evolutionary algorithm
MicroGP (uGP) is a versatile optimizer able to outperform both human experts and conventional heuristics in finding the optimal solution of hard problems. It is an evolutionary algorithm since it mimics some principles of the Neo-Darwinian paradigm.
Admin Page Finder Perl script.
A revision of an Admin page Finder perl script found online. We have added a new list of admin pages to search for and we also added hits logging to an external file to the script. This script is good for Penetration testers who wish to see if an Admin page is visible or easily found by intruders. Original Script found here: -------------------------------------- http://www.hackforsecurity.net/2012/01/admin-finder-perl-script.html
A server emulator for EVE Online to allow private servers and offline play.
Hyper Estraier is a full-text search system. It works as with Google, but based on peer-to-peer architecture. Using Hyper Estraier, we can construct a large-scaled search engine with cheap computers.
DNA sequencing quality values, base calling and trace processing
Tracetuner is a tool for base and quality calling of trace files from DNA sequencing instruments. Originally developed by Paracel, a Celera Business, this code base was released as open source in 2006. TraceTuner was used by Celera to call 30+ million reads from both Drosophila and human genome sequencing projects. In 2000, Applied Biosystems bundled TraceTuner with ABI3700 Genome Analyzers and shipped it to the customers of these capillary electrophoresis sequencers. Later versions of TraceTuner, which support mixed base calling, have been used by the research community, the private biotech sector, and the U.S. government as components of different variant detection, genotyping and forensic software applications (e.g. Applied Biosystems SeqScape, Paracel Genome Assembler, MTexpert, etc.).
Perl ECS is an implementation of the EMDIS Communication System (ECS), following specifications developed for the European Marrow Donor Information System (EMDIS). ECS is a "communication service for the automatic exchange of messages" via email.
Simplebackup is a cross-platform backup program. It reads a configuration file then builds a compress backup set, finally places the compressed files into another location (a directory, a remote http,ftp,sftp server or even one or more email accounts).
Software Unit Tests (Language Independent Approach)
Automation of Unit and System Tests. Tests can be implemented in any language and on many platforms. The flexible approach enables the inclusion of many types of tests, such as memory leak checks (using valgrind), coding rule checks, complexity checks, etc. Tests are run by a simple call to hwut in a base directory of a project. In particular for C, HWUT supports make file generation using 'sos' and 'sols' modes. Remote control-able function stubs may be generated using the 'stub' mode. Test cases can be generated using the 'gen' mode, and state machine walkers by the 'sm_walker' mode. Over the last decade HWUT has matured towards a full fledged unit test tool for a wide variety of applications.
Senora is targeted to be a drop-in replacement for sqlplus. It provides a plethora of new commands, which accept unix-style options. It is extensible via plugins.
CLeWMI (pronounced "clue me") is a Command Line WMI query tool. It's written in perl, for Windows. It allows dynamic querying of WMI from a command line. Works on Window NT, 2000, 2003, and XP. Stand alone executable available.
Learn Linux sysadmin from Windows PC using this Debian Virtual Box
An Oracle Virtual Box image, packaged as an appliance to be downloaded and run anywhere. Created on 32-bit Windows XP & Oracle Virtual box 4.2.6. The VM is a Debian Squeeze 6.0.7 i386. md5sum: 85ab2066b7381af12b741a3d4dedf6c9 This file is to be specifically used along with this other great project: http://nixsrv.com/llthw There is a 64bit Debian image similar to mine in that link above. To benefit those like me who still have 32bit machines, I have created and uploaded this image. This is your fast track to getting up and running in no time. I hope it benefits people with 32bit machines who want to take advantage of the tutorial ASAP. If you found the image helpful, please leave a short note of appreciation (and a thanks to the tutorial maker). I would like that very much. Thanks and Ciao.
TPoX is an XML database benchmark based on a financial application scenario. It is used to evaluate the performance of XML database systems, focusing on XQuery, SQL/XML, XML storage, XML indexing, XML Schema support, XML updates, and other aspects.
Designed to use what is known about users via the /etc/passwd file on unix/linux systems to generate a dynamic dictionary or csv file of more accurate guesses as to what their possible password may be, to look for bad password protection practices.
Perl script to convert PalmOS keyring database to SplashID password manager.
Abuild is a scalable build system that applies Object-Oriented principles to the build problem. It is powerful and flexible and helps ensure build integrity while simplifying the user's view of the build. A thorough user's manual is included.
Simple Monitoring Tools
App::MonM - Simple Monitoring Tools
Monitoring tool: notifications providing
This tool provides notifications functions for monitoring.