Zoem is a general-purpose macro/programming language that submits text to a two-stage transformation process. Macro expansion and interpretation is followed by application of customizable character filtering rules. Zoem supports inside-out evaluation, comprehensive IO, control operators, iteration, dictionary stacks, multidimensional data storage, arithmetic expressions, regular expressions, system commands, and more.
MCL-edge is an integrated command-line driven workbench for large scale network analysis. It includes programs for the computation of shortest paths, diameter, clustering coefficient, betweenness centrality, and network shuffles. A module for loading and analyzing gene expression data as a network is provided. The MCL algorithm is a fast and highly scalable cluster algorithm for networks based on stochastic flow. The flow process employed by the algorithm is mathematically sound and intrinsically tied to cluster structure, which is revealed as the imprint left by the process. The threaded implementation has handled networks with millions of nodes within hours and is widely used in the fields of bioinformatics, graph clustering, and network analysis.
Apparix allows one to bookmark directories and later jump to them using the mark. By default, it acts as a replacement for cd and can be used in the same manner, including the special behaviour for cd without argument and "cd -". It is possible to directly jump to subdirectories of a bookmarked directory. The contributed bash completion code facilitates completion both on bookmarks and directories, but can be adjusted to accommodate other preferences.
Aephea is a text-based authoring tool for HTML. It enforces well-formedness with a simpler and stricter TeX-like syntax and provides useful extensions and abstractions with facilities for adding new ones. It emphasizes a single unified approach that stays close to HTML itself and promotes and utilizes CSS extensively. Abstractions such as dictionary stacks, arithmetic, and iteration are part of Aephea.
Re: error in apparix --shell-examples
> In this function there is an extra then,
> there is one on the end of line 5 and
> one on line 6. I removed the one on line
> 6 in my .bashrc to get it to work.
Indeed. Thanks for the bug report. I've fixed it and released
a new apparix. In slightly bad form it has the exact same
version number and simply overwrites the buggy version.