Mercurial > repos > imgteam > overlay_moving_and_fixed_image
annotate 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 |
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children | bc324ec66719 |
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165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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1 <tool id="ip_viz_overlay_moving_and_fixed_image" name="Overlay" version="0.0.1"> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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2 <description>moving and fixed image</description> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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3 <requirements> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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4 <requirement type="package" version="0.14.2">scikit-image</requirement> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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5 <requirement type="package" version="0.23.4">pandas</requirement> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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6 <requirement type="package" version="1.15.4">numpy</requirement> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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7 <requirement type="package" version="1.1.0">scipy</requirement> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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8 <requirement type="package" version="5.3.0">pillow</requirement> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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9 </requirements> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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10 <command><![CDATA[ |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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11 python '$__tool_directory__/overlay_moving_and_fixed_image.py' |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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12 '$fixed_image' |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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13 '$moving_image' |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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14 '$warp_matrix' |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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15 '$overlay_out' |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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16 --factor $factor |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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17 $inverse_transform |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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18 ]]></command> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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19 <inputs> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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20 <param name="fixed_image" type= "data" format="png" label="Fixed image" /> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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21 <param name="moving_image" type= "data" format="png" label="Moving image" /> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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22 <param name="warp_matrix" type= "data" format="tabular" label="Warp Matrix" /> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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23 <param name="factor" type="float" value="0.5" |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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24 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."/> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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25 <param name="inverse_transform" type="boolean" checked="false" truevalue="--inverse_transform" falsevalue="" |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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26 label="Set to Yes if inverse transformation should be displayed" /> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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27 </inputs> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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28 <outputs> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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29 <data format="png" name="overlay_out" /> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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30 </outputs> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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31 <tests> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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32 <test> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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33 <param name="fixed_image" value="sample1.png" /> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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34 <param name="moving_image" value="sample2.png" /> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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35 <param name="warp_matrix" value="warp_matrix.tsv" /> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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36 <param name="factor" value="0.75" /> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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37 <output name="overlay_out" value="out.png" ftype="png" compare="sim_size" /> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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38 </test> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
imgteam
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39 </tests> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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40 <help> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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41 **What it does** |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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42 |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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43 This tool performs an overlay of two images of which one was transformed to match the other. |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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44 </help> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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45 <citations> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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46 <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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47 </citations> |
165a9330fc90
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/overlay_moving_and_fixed_image/ commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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48 </tool> |