biswebnode/bin/bw_permuteimage.xml

A node.js implementation of BioImage Suite Web command line tools in Javascript and WebAssembly

<?xml version="1.0" encoding="utf-8"?>
<executable>
	<category>BisWEB</category>
	<title>Extract Slice</title>
	<description>This element will permute an image by swapping and flipping axes.</description>
	<version>1.3.0b2</version>
	<documentation-url>https://bioimagesuiteweb.github.io/bisweb-manual</documentation-url>
	<license>GPL v2</license>
	<contributor>Xenios Papademetris</contributor>

<acknowledgements>Funding for this work was provided by the NIH Brain Initiative under grant R24 MH114805.</acknowledgements>
	<parameters>
		<label>Standard</label>
		<description>Standard Parameters</description>
		<string-enumeration>
			<name>New I</name>
			<label>New I</label>
			<description>New I-Axis -- set i-axis to be the old axis specified (mI=-I)</description>
			<longflag>--newi</longflag>
			<default>I</default>
			<element>I</element>
			<element>mI</element>
			<element>J</element>
			<element>mJ</element>
			<element>K</element>
			<element>mK</element>
		</string-enumeration>
		<string-enumeration>
			<name>New J</name>
			<label>New J</label>
			<description>New J-Axis -- set j-axis to be the old axis specified (mI=-I)</description>
			<longflag>--newj</longflag>
			<default>J</default>
			<element>I</element>
			<element>mI</element>
			<element>J</element>
			<element>mJ</element>
			<element>K</element>
			<element>mK</element>
		</string-enumeration>
		<string-enumeration>
			<name>New K</name>
			<label>New K</label>
			<description>New K-Axis -- set k-axis to be the old axis specified (mI=-I)</description>
			<longflag>--newk</longflag>
			<default>K</default>
			<element>I</element>
			<element>mI</element>
			<element>J</element>
			<element>mJ</element>
			<element>K</element>
			<element>mK</element>
			<element>T</element>
			<element>mT</element>
		</string-enumeration>
		<string-enumeration>
			<name>New T</name>
			<label>New T</label>
			<description>New T-Axis -- set t-axis to be the old axis specified (mK=-K)</description>
			<longflag>--newt</longflag>
			<default>T</default>
			<element>T</element>
			<element>mT</element>
			<element>K</element>
			<element>mK</element>
		</string-enumeration>
	</parameters>
	<parameters advanced="true">
		<label>Advanced</label>
		<description>Advanced Parameters</description>
		<string-enumeration>
			<name>Debug</name>
			<label>Debug</label>
			<description>Toggles debug logging</description>
			<longflag>--debug</longflag>
			<default>false</default>
			<element>true</element>
			<element>false</element>
		</string-enumeration>
		<string-enumeration>
			<name>SlicerProgress</name>
			<label>SlicerProgress</label>
			<description>Enables progress xml outputs for Slicer</description>
			<longflag>--slicerprogress</longflag>
			<default>true</default>
			<element>true</element>
			<element>false</element>
		</string-enumeration>
	</parameters>
	<parameters>
		<label>Inputs</label>
		<description>Input Objects</description>
		<image fileExtensions=".nii.gz,.nii">
			<name>Input Image</name>
			<label>Input Image</label>
			<description>The filename for the image to be processed</description>
			<longflag>--input</longflag>
    			<channel>input</channel>
		</image>
	</parameters>
	<parameters>
		<label>Outputs</label>
		<description>Output Objects</description>
		<image fileExtensions=".nii.gz,.nii">
			<name>Output Image</name>
			<label>Output Image</label>
			<description>The output image filename</description>
			<longflag>--output</longflag>
    			<channel>output</channel>
		</image>
	</parameters>

</executable>