--- a +++ b/CLI/CancellousAnalysis/CancellousAnalysis.xml @@ -0,0 +1,80 @@ +<?xml version="1.0" encoding="utf-8"?> +<executable> + <category>Quantification.Musculoskeletal</category> + <index>0</index> + <title>Cancellous Analysis</title> + <description><![CDATA[Perform Musculoskeletal Cancellous Analysis on an image]]></description> + <version>0.1.0.</version> + <documentation-url>https://github.com/username/project</documentation-url> + <license/> + <contributor>Joseph Szatkowski (Washington University in St. Louis)</contributor> + <acknowledgements> + <![CDATA[Developed by the Washington University in St. Louis Musculoskeletal Reseach Center with the assistance of Michael Brodt, Anish Jagannathan, Matthew Silva, and Simon Tang.\n + This file was partially funded by NIH grant P30 AR074992.]]></acknowledgements> + <parameters> + <image> + <name>image</name> + <label>Image</label> + <channel>input</channel> + <index>0</index> + <description><![CDATA[The image to be analyzed]]></description> + <default>1.0</default> + </image> + <image type="label" reference ="image"> + <name>mask</name> + <label>Mask</label> + <channel>input</channel> + <index>1</index> + <description><![CDATA[Mask representing only the bone (not the medullary cavity) with pores covered]]></description> + </image> + <float> + <name>lowerThreshold</name> + <label>Lower Threshold</label> + <channel>input</channel> + <index>2</index> + <description><![CDATA[The lower threshold for bone in the image]]></description> + </float> + <float> + <name>upperThreshold</name> + <label>Upper Threshold</label> + <channel>input</channel> + <index>3</index> + <description><![CDATA[The upper threshold for bone in the image]]></description> + </float> + <float> + <name>voxelSize</name> + <label>Voxel Size</label> + <channel>input</channel> + <index>4</index> + <description><![CDATA[The length of 1 voxel side in mm]]></description> + </float> + <float> + <name>slope</name> + <label>Slope</label> + <channel>input</channel> + <index>5</index> + <description><![CDATA[The slope for density conversion]]></description> + </float> + <float> + <name>intercept</name> + <label>Intercept</label> + <channel>input</channel> + <index>6</index> + <description><![CDATA[The slope intercept for density conversion]]></description> + </float> + <string> + <name>inputName</name> + <label>Input Name</label> + <channel>input</channel> + <index>7</index> + <description><![CDATA[The name of the input image]]></description> + </string> + <string> + <name>output</name> + <label>Output Directory</label> + <channel>input</channel> + <index>8</index> + <description><![CDATA[The directory to output data files to]]></description> + </string> + </parameters> +</executable>