Mercurial > repos > imgteam > imagej2_create_image
view imagej2_create_image.xml @ 3:69e28b06e027 draft default tip
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/image_processing/imagej2 commit 8f49f3c66b5a1de99ec15e65c2519a56792f1d56
author | imgteam |
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date | Wed, 25 Sep 2024 15:56:08 +0000 |
parents | 666af1279007 |
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<tool id="imagej2_create_image" name="Create new image" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="23.0"> <description>with ImageJ2</description> <macros> <import>imagej2_macros.xml</import> </macros> <edam_operations> <edam_operation>operation_3443</edam_operation> </edam_operations> <xrefs> <xref type="bio.tools">imagej</xref> <xref type="biii">imagej2</xref> </xrefs> <expand macro="fiji_requirements"/> <command detect_errors="exit_code"><![CDATA[ #set output_log = 'output_log.txt' #set output_name = '.'.join(['new_image', str($output_datatype)]) ImageJ --ij2 --headless --debug --jython '$__tool_directory__/imagej2_create_image_jython_script.py' '$image_title' $width $height $depth '$image_type' '$output_name' && mv '$output_name' '$output'; ]]></command> <inputs> <expand macro="image_type"/> <param name="image_title" type="text" label="Image title" help="Leave blank for no title"/> <param name="width" type="integer" value="512" min="1" label="Image width in pixels"/> <param name="height" type="integer" value="512" min="1" label="Image height in pixels"/> <param name="depth" type="integer" value="1" min="1" label="Image depth" help="Specifies the number of stack slices"/> <param name="output_datatype" type="select" label="Save as format"> <expand macro="image_datatypes"/> </param> </inputs> <outputs> <data name="output" format="jpg"> <actions> <action type="format"> <option type="from_param" name="output_datatype"/> </action> </actions> </data> </outputs> <tests> <test> <param name="image_type" value="8-bit_ramp"/> <param name="image_title" value="MyTitle"/> <param name="width" value="256"/> <param name="height" value="256"/> <param name="depth" value="1"/> <param name="output_datatype" value="jpg"/> <output name="output" file="create_image1.jpg" ftype="jpg" compare="image_diff"/> </test> </tests> <help> **What it does** <![CDATA[ Creates a new image based on the following entries. - **Type** specifies the image type "8-bit", "16-bit", "32-bit" or "RGB" with options - **Title** is associated with the image, but not displayed in the image - **Width** specifies the width of the image in pixels - **Height** specifies the height of the image in pixels - **Depth** specifies the number of stack slices - **Format** specifies the image format "jpg", "png", etc ]]> </help> <expand macro="fiji_headless_citations"/> </tool>