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planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 60cf803236ef94f414056823688e6fd008b7a1b6
author imgteam
date Thu, 25 Apr 2024 10:58:05 +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">
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2 <description>with scikit-image</description>
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3 <macros>
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4 <import>creators.xml</import>
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5 <token name="@TOOL_VERSION@">0.22.0</token>
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6 <token name="@VERSION_SUFFIX@">3</token>
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7 </macros>
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8 <edam_operations>
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9 <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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10 </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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11 <xrefs>
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12 <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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13 <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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14 </xrefs>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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15 <requirements>
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16 <requirement type="package" version="@TOOL_VERSION@">scikit-image</requirement>
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17 <requirement type="package" version="1.26.4">numpy</requirement>
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18 <requirement type="package" version="1.12.0">scipy</requirement>
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19 <requirement type="package" version="0.1">giatools</requirement>
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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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20 </requirements>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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21 <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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23 ## Inputs
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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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25 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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27 ## Outputs
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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29 ./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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8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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31 ]]>
8b74843c136e planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/voronoi_tesselation commit 43f036ed5341c36a1e076f9df9f47a3743ef4e6f
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32 </command>
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33 <inputs>
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34 <param name="input" type="data" format="png,tiff" label="Label map" />
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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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35 </inputs>
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>
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37 <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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38 </outputs>
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39 <tests>
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40 <test>
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41 <param name="input" value="input1.tiff" />
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42 <output name="result" ftype="tiff">
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43 <assert_contents>
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44
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45 <has_image_width width="10"/>
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46 <has_image_height height="10"/>
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47 <has_image_channels channels="1"/>
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48 <has_image_n_labels n="4"/>
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49 <has_image_n_labels n="0" labels="0"/>
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50
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51 </assert_contents>
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52 </output>
0
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53 </test>
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54 </tests>
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55 <help>
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56
3
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57 **Computes Voronoi tessellations for label maps (labeled images).**
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58
0
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59 Voronoi tessellations are also known as Vornoi diagrams, or Dirichlet tessellations.
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60 Zero labels are treated as image background.
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61
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62 </help>
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63 <citations>
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64 <citation type="doi">10.7717/peerj.453</citation>
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65 </citations>
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66 </tool>