Example: Velvet (standard external application)

In this example, we configure Velvet [Zerbino and Birney, 2008], a popular de novo assembler for next-generation sequencing data, as a standard external application.

The Velvet package includes two programs that need to be run consecutively. The external applications system on the CLC Server is designed to call one program, so a wrapper script is needed to make the needed consecutive calls to the Velvet applications.

An example script as well as a configuration file are available in a zip file at https://resources.qiagenbioinformatics.com/external-applications/velvet-example.zip. These will be used to illustrate how this sort of application can be configured as an external application on a CLC Server.