Mercurial > repos > imgteam > overlay_moving_and_fixed_image
diff overlay_moving_and_fixed_image.xml @ 0:165a9330fc90 draft
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
author | imgteam |
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date | Sat, 09 Feb 2019 14:39:40 -0500 |
parents | |
children | bc324ec66719 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/overlay_moving_and_fixed_image.xml Sat Feb 09 14:39:40 2019 -0500 @@ -0,0 +1,48 @@ +<tool id="ip_viz_overlay_moving_and_fixed_image" name="Overlay" version="0.0.1"> + <description>moving and fixed image</description> + <requirements> + <requirement type="package" version="0.14.2">scikit-image</requirement> + <requirement type="package" version="0.23.4">pandas</requirement> + <requirement type="package" version="1.15.4">numpy</requirement> + <requirement type="package" version="1.1.0">scipy</requirement> + <requirement type="package" version="5.3.0">pillow</requirement> + </requirements> + <command><![CDATA[ + python '$__tool_directory__/overlay_moving_and_fixed_image.py' + '$fixed_image' + '$moving_image' + '$warp_matrix' + '$overlay_out' + --factor $factor + $inverse_transform + ]]></command> + <inputs> + <param name="fixed_image" type= "data" format="png" label="Fixed image" /> + <param name="moving_image" type= "data" format="png" label="Moving image" /> + <param name="warp_matrix" type= "data" format="tabular" label="Warp Matrix" /> + <param name="factor" type="float" value="0.5" + label="Factor by which images are blended. 1.0 returns a copy of the fixed image, 0.0 returns a copy of the moving image."/> + <param name="inverse_transform" type="boolean" checked="false" truevalue="--inverse_transform" falsevalue="" + label="Set to Yes if inverse transformation should be displayed" /> + </inputs> + <outputs> + <data format="png" name="overlay_out" /> + </outputs> + <tests> + <test> + <param name="fixed_image" value="sample1.png" /> + <param name="moving_image" value="sample2.png" /> + <param name="warp_matrix" value="warp_matrix.tsv" /> + <param name="factor" value="0.75" /> + <output name="overlay_out" value="out.png" ftype="png" compare="sim_size" /> + </test> + </tests> + <help> + **What it does** + + This tool performs an overlay of two images of which one was transformed to match the other. + </help> + <citations> + <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation> + </citations> +</tool>