Fqutils provides a basic set of bioinformatics command line tools for working with sequence data in FASTQ format. It complements Greg Hannon's fine Fastx Toolkit suite. One characteristic of Fqutils is that it correctly handles the full FASTQ format as described by the published standard, which specifically allows multi-line sequence and quality score information per record. Fqutils is intended to be useful as part of the early portions of post-sequencing pipelines and quality assessment processes.
Release Notes: Primarily documentation improvements in markdown and help messages.
PixSteward downloads pictures and metadata from your Flickr accounts and archives them in a relational database on your computer, allowing offline searches and image exporting. With PixSteward, you can safely back up multiple Flickr photostreams with metadata to your Mac, perform sophisticated searches (even where there's no Internet connection), rapidly browse your picture archive and export original-sized JPEGs, PNGs, and GIFs (groups and one-by-one), export sets of pictures along with their metadata for use in other apps, and edit your Flickr tags, titles, and descriptions simultaneously on Flickr and within PixSteward.
Release Notes: This release adds the ability to delete pictures from the database.
GroupOffice is a groupware suite that takes your office online, implementing online collaboration and CRM. It allows you to share projects, calendars, files and email online with co-workers and clients. It is easy to use and fully customizable. It also features synchronization with PDAs and Outlook.
Release Notes: This release comes with some important bugfixes and translation updates. Upgrading is recommended.
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: This is a maintenance release providing package updates for tor and dnsmasq and fixes for ipset and ulogd (including MySQL support).
GeoServer is a software server that allows users to share and edit geospatial data. Designed for interoperability, it publishes data from any major spatial data source using open standards. GeoServer is the reference implementation of the Open Geospatial Consortium (OGC) Web Feature Service (WFS) and Web Coverage Service (WCS) standards, as well as a high performance certified compliant Web Map Service (WMS). GeoServer forms a core component of the Geospatial Web.
Release Notes: This release comes with some major new features and improvements.
relax is a program designed for the study of the dynamics of proteins and other macromolecules though the analysis of experimental NMR data. It supports exponential curve fitting for the calculation of the R1 and R2 relaxation rates, calculation of the NOE, reduced spectral density mapping, the Lipari and Szabo model-free analysis, study of domain motions via the N-state model (or ensemble analysis) and frame order dynamics theories using anisotropic NMR parameters such as RDCs and PCSs, the investigation of stereochemistry in dynamic ensembles, and the analysis of relaxation dispersion.
Release Notes: This release includes a major overhaul of the relax user manual with the addition of new chapters and tutorials for all analyses and major expansions and improvements overall. It also includes a major set of bugfixes to re-enable the NOE, R1, and R2 analyses of multiple spin types (e.g. the Trp sidechain indole NH), window ordering fixes for the GUI, and numerous other small bugfixes.
QtitanRibbon is implementation of Microsoft's Ribbon UI for Qt. It contains a collection of widgets (control elements) which will help you quickly and easily add a next-gen user interface to your application. The product is completely based on the Qt SDK.
Release Notes: This update fixes several critical bugs that affect backwards compatibility with previous versions.
POP-Before-SMTP-Auth is a POP before SMTP daemon for Dovecot and Postfix that works by scanning mail server log files. The line-matching regex can be changed from the configuration file, in case Dovecot's logging format changes, and also to adapt the script for use with something besides Dovecot. Presently the script requires that the IP address appear on a single line with the successful login in the log file.
Release Notes: This release consists of one single script file, and generates a message to syslog if the monitored log file disappears for more than a configurable amount of seconds. There are various internal changes that didn't change functionality but cleaned up the code a bit.
MSS Code Factory is a rule-based expert system for translating application models to source code.
Release Notes: This release passes the database validation suite, such as it is, including successfully merging data with updates, and replaces if the database is already populated. TZ support is not correct yet (timezone details are not calculated during the SAX parse and are not persisted correctly), but all other data types can be persisted correctly to PostgreSQL. Note that cascading deletes of components/children/details is not implemented yet.
JPPF makes it easy to parallelize computationally intensive tasks and execute them on a Grid.
Release Notes: This maintenance release brings important bugfixes.
MDIFramework provides a ready-to-use architecture to ease the creation MDI-style applications in Java. It takes care of the overall architecture of the main window of the application, with a tabbed architecture, the presence of an HTML printable message area, and so on. It provides a generic API to manage lengthy actions, keeping the interface responsive, and taking care that actions are performed one at a time, without having to bother about it. It can add metadata to already opened files. It manages loading and unloading of external plugins at runtime.
Release Notes: This release protects the LauncherConf class against problems which could happen during class initialization in cases in which the userdir of the launcher program has been moved away from the jar file.
Reportico is a PHP reporting tool. It can create a report from a single SQL command and then build a whole suite of reports with criteria entry, graphs, groups, drill-downs, and expression handling. You can perform data transformation with your own custom PHP code. It can produce output in HTML, PDF, CSV, XML, and JSON.
Release Notes: This release fixes cell borders not showing in PDF output, critera linking via "Main Query Column", and SQL requiring FROM statements on separate lines from column lists.
Release Notes: This release adds a major upgrade to detection logic, streamlined code, and less database load.
Mrs is a lightweight but high performance implementation of the MapReduce programming model for parallel computation. It is optimized for computationally intensive programs, especially those which are iterative, though it is applicable to a wide range of applications. It is intended to be simple to install and use. It is written in Python, supports both Python 2 and Python 3, and has no dependencies outside the standard library. The name "Mrs" derives from the practice of referring to MapReduce programs by the title "mister" (e.g., "Mr. Wordcount").
Release Notes: This release offers significant improvements to performance, stability, and ease of use.
libusbx is a library which provides generic access to USB devices. As a library, it is meant to facilitate the development of applications which communicate with USB hardware. Its main features are portability (a single cross-platform API for Linux, OS X, Windows, and *BSD), user-mode (no special privileges required), and USB version-agnosticism (all versions of the protocol supported, including USB 3.0).
Release Notes: This release fixes major timeout-related bugs and broken support for the libusb-compat layer. It fixes a typo in the configuration descriptor structure, where MaxPower was used instead of bMaxPower, as per the USB specs. Support for the libusb-win32 and libusbK generic USB drivers has been added on Windows, and a new fxload sample, for Cypress FX/FX2 devices, has been introduced.
John the Ripper is a fast password cracker, currently available for many flavors of Unix, Windows, DOS, BeOS, and OpenVMS. Its primary purpose is to detect weak Unix passwords. It supports several crypt(3) password hash types commonly found on Unix systems, as well as Windows LM hashes. On top of this, lots of other hashes and ciphers are added in the community-enhanced version (-jumbo), and some are added in John the Ripper Pro.
Release Notes: This is mostly a bugfix release. Besides the many bugfixes (mostly for issues introduced with -jumbo-6), it adds support for cracking of KeePass 2.x and RAdmin 2.x passwords and more varieties of PKZIP archives. It also adds GPU support under recent Mac OS X releases, provides speedups for many of the previously-supported formats, and includes minor new features and documentation updates.