Seqware module wrapping - 5 more modules

We need someone who can wrap existing code as very simple, individual java objects in the open source SeqWare software pipeline. This requires only a small amount of Java code to wrap existing command line tools.

## Deliverables

This job is to write a small Java wrappers for an existing command line tools, it will be approximately 1-2 hours of work for each module. The details below may seem involved but the process is very simple once you do one. There is potential for many more of these small jobs in the future.

For each module, the code source must be pre-compiled and statically linked to work with CentOs 5 and must also be wrapped in a way that exposes all the possible inputs as arguments.

Here is a list of modules we need wrapped up for this project along with links to their source code:

pindel

[url removed, login to view]

BreakDancer

[url removed, login to view]

TopHat

[url removed, login to view]

BowTie

[url removed, login to view]

CuffLinks

[url removed, login to view]

Instructions on how to wrap this application into a module can be found here:

[[url removed, login to view]][1]

Source code for the seqware project can be found here on the main page.

[url removed, login to view]

Finally, it is important that the module be documented fully. That means that the arguments that you can pass to it must be documented carefully so that others can make proper use of this module. You can see examples of documentation here:

[[url removed, login to view]][2][w][2]

Java Linux PHP Arquitectura de software Verificación de software UNIX

Nº del proyecto: #2969824

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