Free compatible software for linux

Bio::Tree::Compatible is a Perl module for testing compatibility of phylogenetic trees with nested taxa.

SYNOPSIS

use Bio::Tree::Compatible;
use Bio::TreeIO;
my $input = new Bio::TreeIO(-format => newick,
-file => input.tre);
my $t1 = $input->next_tree;
my $t2 = $input->next_tree;

my ($incompat, $ilabels, $inodes) = $t1->is_compatible($t2);
if ($incompat) {
my %cluster1 = %{ $t1->cluster_representation };
my %cluster2 = %{ $t2->cluster_representation };
print "incompatible treesn";
if (scalar(@$ilabels)) {
foreach my $label (@$ilabels) {
my $node1 = $t1->find_node(-id => $label);
my $node2 = $t2->find_node(-id => $label);
my @c1 = sort @{ $cluster1{$node1} };
my @c2 = sort @{ $cluster2{$node2} };
print "label $label";
print " cluster"; map { print " ",$_ } @c1;
print " cluster"; map { print " ",$_ } @c2; print "n";
}
}
if (scalar(@$inodes)) {
while (@$inodes) {
my $node1 = shift @$inodes;
my $node2 = shift @$inodes;
my @c1 = sort @{ $cluster1{$node1} };
my @c2 = sort @{ $cluster2{$node2} };
print "cluster"; map { print " ",$_ } @c1;
print " properly intersects cluster";
map { print " ",$_ } @c2; print "n";
}
}
} else {
print "compatible treesn";
}

Bio::Tree::Compatible is a Perl tool for testing compatibility of phylogenetic trees with nested taxa represented as Bio::Tree::Tree objects. It is based on a recent characterization of ancestral compatibility of semi-labeled trees in terms of their cluster representations.

A semi-labeled tree is a phylogenetic tree with some of its internal nodes labeled, and it can represent a classification tree as well as a phylogenetic tree with nested taxa, with labeled internal nodes corresponding to taxa at a higher level of aggregation or nesting than that of their descendents.

Two semi-labeled trees are compatible if their topological restrictions to the common labels are such that for each node label, the smallest clusters containing it in each of the trees coincide and, furthermore, no cluster in one of the trees properly intersects a cluster of the other tree.

Future extensions of Bio::Tree::Compatible include a Bio::Tree::Supertree module for combining compatible phylogenetic trees with nested taxa into a common supertree.

Annotatio provides an Annotea-compatible annotation system for Web pages and XML files.

It allows you to create and share annotations to various types of documents. Most people can use this program to save comments to HTML documents, but it also supports other types of annotations and XML-like documents.

In opposition to the current implementation of the W3C, Annotatio will save enhanced information of the annotations positioning within the document, which will allow positing the annotation even if the location or structure of the original document has changed.

In local mode, it will save all annotations locally, and in remote mode, it will save the annotations on a central Annotea-compatible server, such as Annotatio Server.

TERMatrix software emulates "The Matrix" on your VT-100 compatible terminal 8^).

It has been tested on GNU/Linux.

Installation:

To compile, just type ``make.
To enter the matrix, just type ``./termatrix.
To end it, just press CTRL-c .

"The Matrix" is a movie from Warner Bros. Inc. Warner Bros. Inc. isnt affiliated in any way with TERMatrix.

FreeBASIC - as the name suggests - is a free, open-source, 32-bit, MS-QuickBASICs syntax-compatible compiler, that adds new features such as pointers, unsigned data types, inline-assembly and many others.
Main features:
- syntax compatible with Microsofts QBASIC/QuickBASIC/PDS/VBDOS interpreters/compilers
- clean syntax
- great number of variables types, like BYTE/SHORT/INTEGER, SINGLE/DOUBLE and STRING
- user defined types (UDTs)
- enums (Enumerations)
- arrays
- pointers
- optional function arguments (numeric only)
- inline assembly
- pre-processor
- creates OBJs, LIBs, DLLs/Shared Libs, console and GUI EXEs
- as a 32-bit application
- optimized code generation
- completely *FREE*
- portability

Teacher Control Panel allows a teacher to monitor, lock, and operate student computers and broadcast the teachers screen to the students.
Teacher Control Panel can work with a mix of Windows and Linux workstations. The screens are captured using VNC, and the teachers screen is broadcast using multicast.
Main features:
- Supervise the activity of the students (view student screens)
- Lock student screens
- Broadcast the teacher screen to students (all students or a subset) fullscreen or in a window (this feature uses multicast therefore can scale to many computer very well)
- Control remotely a student computer
- Run a script for every student computers
- Compatible with any Java compatible OS (default configuration is for Linux)

ClikMenu project is a library of functions for creating drop-down and popup menus with JavaScript.

Support for multi-level (i.e. cascading or hierarchical) menus is standard, and entries can be URI links, "onmousedown"-type function calls, plaintext labels, or submenus.

ClikMenu is compatible with Firefox, Internet Explorer 6, and other recent browsers. There are no server-side requirements.

OggCarton is a free, open source, home jukebox system that rips, indexes, and manages playlists for Ogg Vorbis music files.
Includes a web server for playing files on your home network. Compatible with existing MP3 files.

PHPBibMan is a Web-based literature database for scientific purposes. It is fully compatible with BibTex and offer comfortable exchange of references for scientists.
Main features:
- multiple users with different access rights
- localisation
- "Carts"
- BibTex import and export
- meta data like: abstracts, notes, library, topical classification file attachments
- access rules