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annotate voronoi_tessellation.xml @ 0:8b74843c136e draft

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planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
author imgteam
date Sat, 09 Mar 2024 22:27:23 +0000
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8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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1 <tool id="voronoi_tessellation" name="Compute Voronoi tessellation" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="23.0">
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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2 <description>with scikit-image</description>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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3 <macros>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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4 <token name="@TOOL_VERSION@">0.22.0</token>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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5 <token name="@VERSION_SUFFIX@">0</token>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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6 </macros>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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7 <edam_operations>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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8 <edam_operation>operation_3443</edam_operation>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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9 </edam_operations>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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10 <xrefs>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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11 <xref type="bio.tools">scikit-image</xref>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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12 <xref type="biii">scikit-image</xref>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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13 </xrefs>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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14 <requirements>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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15 <requirement type="package" version="1.26.4">numpy</requirement>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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16 <requirement type="package" version="1.12.0">scipy</requirement>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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17 <requirement type="package" version="0.22.0">scikit-image</requirement>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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18 </requirements>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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19 <command><![CDATA[
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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20
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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21 ## Inputs
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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22
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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23 python '$__tool_directory__/voronoi_tessellation.py' '$input'
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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24
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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25 ## Outputs
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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26
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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27 ./result.tiff
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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28
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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29 ]]>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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30 </command>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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31 <inputs>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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32 <param name="input" type="data" format="png,tiff" label="Labeled image" />
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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33 </inputs>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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34 <outputs>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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35 <data format="tiff" name="result" from_work_dir="result.tiff" />
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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36 </outputs>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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37 <tests>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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38 <test>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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39 <param name="input" value="input1.tiff" />
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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40 <output name="result" value="input1_result.tiff" ftype="tiff" compare="sim_size" delta="0" />
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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41 </test>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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42 </tests>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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43 <help>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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44
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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45 This tool computes Voronoi tessellations for labeled images.
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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46 Voronoi tessellations are also known as Vornoi diagrams, or Dirichlet tessellations.
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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47 Zero labels are treated as image background.
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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48
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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49 </help>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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50 <citations>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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51 <citation type="doi">10.7717/peerj.453</citation>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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52 </citations>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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53 </tool>