Command-Line Programmes

Introduction

The woolz library functions are complemented by a set of programmes or binaries for command-line processing of woolz formatted data. Most binaries can read data from standard input and will write to standard output and can therefore be used in unix "pipeline" mode. This allows efficient concatenation of multiple imaging operations for rapid prototyping and script development.

The binary codes are all installed in the Mouse Atlas bin directory (usually /opt/MouseAtlas/bin) and provide a significant proportion of the libWlz plus supplementary library functionality. Simple binaries for the basic woolz functions are under binWlz, other binaries relating to format conversion are under binWlzExtFF and more complex applications can be found under binWlzApp.