Mercurial > repos > imgteam > imagej2_create_image
view imagej2_create_image.xml @ 1:1a7c29d5fc11 draft
"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/image_processing/imagej2 commit 2afb24f3c81d625312186750a714d702363012b5"
author | imgteam |
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date | Mon, 28 Sep 2020 16:43:06 +0000 |
parents | dc3935a0165a |
children | 666af1279007 |
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<tool id="imagej2_create_image" name="Create new image" version="@WRAPPER_VERSION@.0"> <description></description> <macros> <import>imagej2_macros.xml</import> </macros> <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' '$output_name' &>'$output_log'; if [[ $? -ne 0 ]]; then cat '$output_log' >&2; else mv '$output_name' '$output'; fi ]]></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"/> </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>