MSAProbs is a protein multiple sequence alignment algorithm. It achieves the statistically highest alignment accuracy on popular benchmarks: BALIBASE, PREFAB, SABMARK, and OXBENCH, compared to ClustalW, MAFFT, MUSCLE, ProbCons, and Probalign.
Release Notes: This release adds assorted bugfixes and enhancements.
ScalaBLAST is a high-performance multiprocessor implementation of the NCBI BLAST library. It supports all 5 primary program types (blastn, blastp, tblastn, tblastx, and blastx) and several output formats (pairwise, tabular, and XML). It will run on most multiprocessor systems which have MPI installed, and can run over a wide variety of interconnects, including infiniband, quadrics, and ethernet. It is designed to run a large number of queries against either large or small databases. It parallelizes the BLAST calculations by dynamically scheduling them across processors using a fault-resilient scheme.
Release Notes: This release adds assorted bugfixes and enhancements.
Fingerprint GUI is a set of GUI tools for the use of fingerprint scanners on Linux systems. It enables the recording and checking of fingerprints of users and allows login and authentication of users by their fingerprint through its PAM module. An additional "fingerprintIdentifier" application can be used for customized (shell) scripts when users have to be identified or authenticated by their fingerprints. The system is based on device drivers from the "libfprint" project.
Release Notes: Some bugfixes and workarounds for running on Lubuntu 11.10 and Ubuntu 11.10 have been applied: Fingerprint-polkit-agent didn't start on Lubuntu 11.10, there was no fingerprint login on a secure tty on Ubuntu 11.10, the X server didn't restart on logout on Ubuntu 11.10, and an error message didn't show up when a user's homedir was encrypted and fingerprint login was without password.
UDIG (User-friendly Desktop Internet GIS) is a spatial data viewer and editor with emphasis on the OpenGIS standards for Internet GIS, the Web Map Server and Web Feature Server standards. It provides a common platform for building spatial applications with open source components.
Release Notes: This point release includes new functionality and some great usability improvements, with a new tool palette and easy-to-access tool options.
Ahcpd is an implementation of the Ad-Hoc Configuration Protocol (AHCP), a configuration protocol designed for networks where DHCP doesn't work, such as wireless mesh networks.
Release Notes: This version fixes a bug that could cause a client to immediately deconfigure itself after successfully renewing a lease.
samhain is a daemon that can check file integrity, search the file tree for SUID files, and detect kernel module rootkits (Linux only). It can be used either standalone or as a client/server system for centralized monitoring, with strong (192-bit AES) encryption for client/server connections and the option to store databases and configuration files on the server. For tamper resistance, it supports signed database/configuration files and signed reports/audit logs. It has been tested on Linux, FreeBSD, Solaris, AIX, HP-UX, and Unixware.
Release Notes: This release fixes a memory leak in the code for inotify support, as well as a potential deadlock. Bugs in the suid.check and port check modules have been fixed, and compile problems on FreeBSD have been resolved.
Super Flexible File Synchronizer lets you back up your data and synchronize PCs, Macs, servers, notebooks, and online storage space. You can set up as many different jobs as you need and run them manually or by using the scheduler. The software works with local hard drives and any other mounted volumes. In addition, it comes with support for FTP, SSH, HTTP, WebDAV, Amazon S3, and Google Docs. You can use Zip compression and data encryption. There are powerful synchronization modes, including Standard Copying, Exact Mirror, and SmartTracking.
Release Notes: This update contains many smaller improvements and bugfixes.
Speedometer is a console bandwidth and file download progress monitor with a linear/logarithmic bandwidth display and a simple command-line interface.
Release Notes: This release adds a linear scale option, a long-requested feature. It also updates to a weighted moving average and has more display options, including bits/second and customizable minimum and maximum values displayed.
IMAPFilter is a mail filtering utility. It connects to remote mail servers using the Internet Message Access Protocol (IMAP), sends searching queries to the server, and processes mailboxes based on the results.
Release Notes: This release fixes a problem that caused the become_daemon() function to fail.
The ADAPTIVE Communication Environment (ACE) is an object-oriented (OO) C++ framework that helps you develop and deploy high-performance networked applications faster and with less code to write and maintain. ACE is especially useful for systems that use network and/or inter-process communications and that take advantage of multithreading. While the ACE source code is free, that's not the only way you save money with ACE. ACE's wrappers and higher-level patterns help you develop your software quickly and portably, helping you to complete your projects on time and within budget.
Release Notes: This release adds support for RHEL 6.1 64-bit. It adds a new heuristic for the collocation strategy. TAO skeletons have been refactored. Connections can now be established at deployment time rather than first-use. DDS subscribers and publishers are now created when needed. CIAO has better thread safety. There are assorted bugfixes.
pycrc is an easy to use CRC calculator and source code generator. The generated C source code can be optimized for simplicity, speed, or tight memory constraints for embedded platforms. pycrc contains a long list of the parameters of common CRC models.
Release Notes: This version fixes a few smaller issues in the code generator. It no longer includes stdint.h for C89/ANSI code, removes an unused variable missed in the last version, and fixes a bug with C89 code for 64-bit CRCs.
xombrero is a minimalist's Web browser. It strives to be vi-like and is suited for heavy keyboard users.
Release Notes: Keyboard handling has been rewritten in order to hook keys earlier. This enables much more fine grained control. Vi mode is much nicer now. A hybrid keyboard mode (sort of emacs-like) has been added. A proxy enable/disable toggle command has been added. JS autorun after a page loads has been added. Some more hinting mode bugs have been fixed.
Babel is a distance-vector routing protocol for IPv6 and IPv4. It is designed to be robust and work efficiently on both wired networks and wireless mesh networks.
Release Notes: Major scalability improvements to the implementation (the protocol remains unchanged). Babeld should now handle networks with a few thousands of nodes with minimal CPU usage.
WildMidi is a wave table player that uses Gus Pat sound sets to play MIDI files. It is capable of multi-threading and multi-processing of MIDI files, allowing for the mixing of multiple MIDI files at any one time.
Release Notes: This release fixes various build issues, cleans up internal MIDI storage, fixes missing config.h includes, fixes a critical error with sysex parsing, adds multiple drum track support via sysex event, adds total_midi_time in the WildMidi_GetInfo structure to return the total time stated by the MIDI, fixes approx_total_samples to more accurately display the expected playing time, fixes samples per delta calculations, and adds WM_MO_WHOLETEMPO and WM_MO_ROUNDTEMPO to WildMidi_Init.
LAPACK is a linear algebra library, based on LINPACK and EISPACK, designed to provide routines for handling simultaneous equations and matrix algebra efficiently, particularly on shared memory vector processors, parallel processors, and clusters. The code is written in Fortran, and requires the BLAS (Basic Linear Algebra Subprograms) library.
Release Notes: This release adds xGEQRT, a QR factorization facility that enables better performance when the blocked reflectors need to be reused. It adds xGEQRT3, a recursive QR factorization facility that has high performance on tall and skinny matrices. It adds xTPQRT, a collection of Communication-Avoiding QR sequential kernels. It replaces the build system with CMAKE for better portability. It adds Doxygen documentation. It integrates LAPACKE's C language APIs into LAPACK.
DeVeDe is a program to create video DVDs (compatible with home players) from nearly any video format. It only uses Python, MPlayer, Mencoder, DVDAuthor, VCDImager, and mkisofs, so it has very few dependencies.
Release Notes: Now copies all the audio tracks to the output when using FFMpeg. Support for changing volume in FFMpeg. Allows you to change the margins in a DVD menu. Fixes several dialogs that failed when answering "No". Support for getting the number of CPUs using the multiprocessing module, which is useful for *BSD users. An issue when the aspect ratio was NaN has been fixed. There is a new background image. The .m2ts extension has been added as a video file type. The French translation has been fixed, and a Turkish translation added.
LEAF is a secure, feature-rich, customizable embedded Linux network appliance for use in a variety of network topologies. Although it can be used in other ways, it's primarily used as a Internet gateway, router, firewall, and wireless access point.
Release Notes: Only one change since rc1 with the addition of the busybox watch applet. This release provides new packages like squid with IPv6 support, sshblacklist, reinstates asterisk, adds ClamAV and HAVP to build an antivirus proxy scanner, and updates packages to their latest upstream versions.
The ATLAS (Automatically Tuned Linear Algebra Software) project is an ongoing research effort focusing on applying empirical techniques in order to provide portable performance. It provides C and Fortran77 interfaces to a portably efficient BLAS implementation, as well as a few routines from LAPACK.
Release Notes: Fixed to work with LAPack 3.4.0. Fixes for buffer overruns in configuration. The addition of the AVX cgemvT kernel. New Corei264AVX architecture definitions for gcc 4.6.2.
Rho is a small, very powerful console-based POSIX text editor and mini-IDE with Bash/Emacs key bindings. A configuration file allows the user to create macros using not only any internal function but anything available to a shell command. Keyboard macros (Ctl-Alt-A through Z) can be sourced into the editor for each kind of task, the next sourcing overwriting the last. Rho also allows an unlimited number of templates (sh, awk, python, etc.) to be injected into executable buffers which trap stdout and stderr.
Release Notes: The third refactoring pass continues, with 14 of 25 source files completed. Minor reductions in code and removal of obsolete elements were made.
Makagiga is an easy-to-use, portable application for doing a variety of tasks, such as todo listing, text editing, or RSS reading. Plugins are used to implement its various capabilities.
Release Notes: This release brings improved Todo Lists, a Text/HTML editor with new functions, and automatic update notifications. It also includes bugfixes and various user interface enhancements.
Remote Launcher is an easy to use tool that enables you to launch applications remotely on your PC via your Android device with a single click. It can also be used to start your PC up, even if it is turned off, with the built in support for Wake On LAN. It consists of an Android app and a small server program for your PC. You can configure Remote Launcher to start any application on your PC. For example, it can start your mediacenter, shutdown or restart the computer, or run a custom script.
Release Notes: This release fixes a possible crash when using an invalid launcher ID. It adds a Wake On LAN widget.
LiVES is a simple to use yet powerful video effects, editing, conversion, and playback system aimed at the digital video artist and VJ. It runs under Linux, BSD, Mac OS X/Darwin, IRIX, and openMosix. It is frame and sample accurate, can handle almost all types of video, and is fully extendable through plugins and the included plugin builder tool. It can also be controlled remotely using OSC.
Release Notes: Support for v4l2loopback output has been added. Instant opening of WebM / Matroska clips and a Youtube download tool have been implemented. Fixes were made for crash recovery for virtual clips, and a possible crash when showing preview frame in multitrack. Memory allocation has been optimized for multiplanar images. A compilation problem from the last release has been fixed.
Drupal is a modular content management system, forum, blogging and community engine. It is database driven and can be used with MySQL, MariaDB, PostgreSQL, and SQLite. Its features include (but are not limited to) discussion forums, Web-based administration, theme support, a submission queue, content rating, content versioning, taxonomy support, user management with a fine-grained permission system based on user roles (groups), error logging, support for content syndication, locale support, and much more. It is considered to be an excellent platform for developers due to its clean code and extensibility, and it can also be used as a Web application framework.
Release Notes: This maintenance release adds numerous bugfixes, but no security fixes and no new features. Several major bugs, including one causing errors with the 5.x branch of Drush, have been fixed. Upgrading your existing Drupal 7 sites is strongly recommended.
CASampledSP is a JNI-based service provider for the javax.sound.sampled.spi interfaces. As such it is capable of decoding many popular audio formats (like mp3 and aac) at native speed taking advantage of Apple's CoreAudio library. The focus is currently on decoding and converting to LPCM, not on writing or exporting.
Release Notes: Issues with chaining multiple AudioInputStreams for conversion purposes were fixed.
4MLinux is a miniature Linux distribution focusing on four capabilities: maintenance (by using it as a system rescue live CD), multimedia (for example, for playing video DVDs), miniserver (using the inetd daemon), and mystery (meaning console games).
Release Notes: This release is designed to be installed to a hard disk drive. The minimum requirements are 90 MB of RAM and 200 MB of free disk space, so this is especially useful for older PCs.