annotate visceral-evaluatesegmentation.xml @ 0:8c1a805c2fc5 draft

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date Sat, 09 Feb 2019 14:48:18 -0500
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8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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1 <tool id="ip_visceral_evaluatesegmentation" name="Visceral" version="0.5">
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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2 <description>Evaluate Segmentation</description>
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3 <requirements>
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4 <!--requirement type="package" version="9c">jpeg</requirement-->
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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5 <!--requirement type="package" version="4.13.0">libitk</requirement-->
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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6 <requirement type="package" version="2015.07.03">visceral-evaluatesegmentation</requirement>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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7 </requirements>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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8 <command>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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9 <![CDATA[
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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10 EvaluateSegmentation '$gt_path' '$seg_path' -xml '$output'
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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11 ]]>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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12 </command>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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13 <inputs>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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14 <param name="gt_path" type="data" format="tiff,png,jpg,bmp" label="Ground Truth Image"/>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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15 <param name="seg_path" type="data" format="tiff,png,jpg,bmp" label="Segmented Image"/>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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16 </inputs>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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17 <outputs>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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18 <data format="xml" name="output"/>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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19 </outputs>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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20 <tests>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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21 <test>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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22 <param name="gt_path" value="sample.png" />
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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23 <param name="seg_path" value="sample.png" />
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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24 <output name="output" value="out.xml" ftype="xml" lines_diff="15" />
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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25 </test>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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26 </tests>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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27 <help>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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28 **What it does**
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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29
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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30 Calculates Metrics for Evaluating Image Segmentation</help>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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31 <citations>
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32 <citation type="doi">10.1186/s12880-015-0068-x</citation>
8c1a805c2fc5 planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/visceral-evaluatesegmentation commit c3f4b766f03770f094fda6bda0a5882c0ebd4581
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33 </citations>
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34 </tool>